PhD scholarship

 PhD scholarship in Bioinformatics, Genomics and Life Science:


Update  on  June 19, 2019

12 PhD positions at Biotech Research and Innovation Centre (BRIC), University of Copenhagen

12 PhD positions are open at BRIC, University of Copenhagen (UCPH) for talented young researchers who want to pursue a PhD degree in life sciences. First cohort of 12 PhD fellows were recruited in January 2019, and we are now looking for the second cohort to start in February 2020.The scheme is co-funded by the European Union’s Horizon 2020 Research and Innovation Programme under the Marie Skłodowska-Curie grant agreement no. 801481.

iMED offers 36 months fellowships, attractive employment conditions at BRIC and enrolment as a PhD-student at the Graduate School of Health and Medical Sciences, UCPH. Each PhD student will work with an original interdisciplinary research project, developed jointly by the student and supervisor in one of BRIC’s 24 laboratories. International and interdisciplinary co-supervision is arranged for each student.

BRIC is a top research centre and our researchers have made seminal contributions in the field of epigenetics, cancer biology, stem cell biology, neurobiology and bioinformatics. The centre is located in modern buildings with state-of-the art facilities and counts 250 employees and more than 60% international researchers. The daily language is English. The centre has an open and collaborative scientific environment and a student association offering network and social activities. BRIC is part of the Faculty of Health and Medical Sciences at the University of Copenhagen.

Eligibility criteria

The programme is open for motivated researchers with a Master degree (or equivalent) and maximum three years of experience since issuing of the degree at the time of application. Applicants with an MD can have up to five years of experience. Prolonged career breaks are taken into acoount (parental leave, illness, military- or civil service).

Deadline for application is August 1st, 2019.

For details click here


PhD scholarship in Improved Immunoinformatic Methods for Rational T Cell Epitope Discovery

The Bioinformatics section at the Department of Health Technology has its main research and teaching activities in bio-medical and bio-technological informatics, metagenomics, epidemiology, integrative systems biology and machine learning. Our research at DTU Bioinformatics is focused on bioinformatics and computational analyses of large amounts of data generated within biological, biomedical and biotechnological and life sciences area.

We strive to gain new knowledge and drive innovation in human, animal, plant and food science and collaborate with all relevant industries. A cornerstone in achieving this is the dedicated effort to develop bioinformatics, immuno-informatics, metagenomics and systems biology methods and solutions to the challenge of handling and interpreting large scale and heterogeneous big data. We run projects combining big data and laboratory research via the national supercomputing center (Computerome) and molecular genomics laboratories.

The project will focus on further advancing our understanding of the rules associated with the process of MHC antigen presentation and T receptor recognition of their cognate epitope targets, with the aim of developing improved methods for rational epitope discovery, and T cell repertoire profiling. The project will be centered around MHC MS eluted ligand data, and single cell T cell sequence data available from collaborators and the public domain.

Qualifications
Candidates should hold a MSc in bioinformatics, biology, computer science, engineering, or a similar degree with an academic level equivalent to the MSc in engineering.In addition, the successful candidate should be able to exhibit the following personal and professional qualifications:

  • Strong computational skills and experience with Unix/Linux command line environments, as well as Python, Perl, R, C or a comparable scripting language.
  • Background within machine learning, bioinformatics and structural biology. 
  • In depth understanding of the basic concepts of the cellular immune system
  • Strong communication skills in written as well as spoken English.
  • Flexibility and a general positive attitude to changes 
  • Capability of taking personal responsibility for your work and your results 

Application Please submit your online application no later than 1 July 2019 (local time).

For details click here


Posted on June 17, 2019

44 PhD positions in Systems Medicine

PhD in System Medicine Curriculum in: Molecular Oncology, Computational Biology, Human Genetics, Medical Humanities. The PhD Program aims to train young and motivated researchers in the wide field of modern Biomedicine. The general idea is that complex systems, such as diseases and their pathogenesis, cannot be understood taking into account a single point of view. The expertise of different scientists, biologists, medical doctors, computer scientists, physicists and mathematicians must give their contribution to provide new insights.

In the international scientific environment of our school sites in Milan and Naples, Italy, the European School of Molecular Medicine (SEMM) offers 44 PhD positions. 
Applicants should hold 2nd level degree (MSc, or equivalent) in any subject related to the PhD research areas and have a certified B2 level of English proficiency.

CALL CLOSING 11 July 2019

For details click here


Doctoral (PhD) student position in Chromosome Biology

The Department of Cell and Molecular Biology (CMB) is a department with a strong focus on basic science. CMB conducts research and education in cell biology, molecular biology, developmental biology, stem cell biology, cancer and infection biology. We are looking for an ambitious, highly motivated and curious doctoral candidate to join Laura Baranello’s research group at the Karolinska Institutet in Stockholm, Sweden, to elucidate the mechanism of topoisomerase regulation during transcription with the overall goal to develop new strategies to inhibit topoisomerases function for cancer treatment.

Laura Baranello, Ph.D., was recruited from the National Institutes of Health (NIH, USA) to the Department of Cell and Molecular Biology of Karolinska Institutet as an Assistant Professor. Her group focuses on understanding how transcription, chromatin and DNA topology are functionally coordinated in human cells. The detailed understanding of topoisomerase regulatory networks during transcription will provide a new rational to target topoisomerases in cancer therapy. The group is located at Biomedicum, an interdisciplinary research platform, where the student will have access to state-of-the-art technologies and an excellent interdisciplinary research environment.

You meet the general eligibility requirement for doctoral/third-cycle/PhD education if you:

  1. have been awarded a second-cycle/advanced/master qualification (i.e. master degree) or
  2. have satisfied the requirements for courses comprising at least 240 credits of which at least 60 credits were awarded in the advanced/second-cycle/master level, or
  3. have acquired substantially equivalent knowledge in some other way in Sweden or abroad.*

Reference number 2-3225/2019

Last application date 17.Jul.2019 11:59 PM CET

For details click here


Posted on June 14, 2019

PhD position in Mass spectrometry, Computational modelling and experimental mutagenesis

This is a multidisciplinary joint research effort within the Institute of Complex Systems 4 (ICS-4) – Cellular Biophysics, Institute of Neuroscience and Medicine (INM-9) and Institute for Advanced Simulations (IAS-5) and Central Institute for Engineering, Electronics and Analytics 3 (ZEA-3) at Forschungszentrum Jülich.

In excitable cells, voltage-gated calcium channels open upon depolarization and couple electrical activity to neurotransmission, muscle contraction, endocrine gland secretion and gene expression. The actin-based cellular cytoskeleton provide the scaffold for the cellular organization and the tracks for the intracellular trafficking of the channel toward and from the plasma membrane. The association between voltage-gated calcium channel and actin filaments regulates synaptic transmission. This project aims to characterize the calcium channel/actin interaction in health and disease states at the molecular level using a multi-methodology platform.

Your Profile:

  • Master degree in Biology, or related natural sciences disciplines (Biochemistry, Biotechnology, Biomedicine, Pharmacy or Molecular Medicine)
  • Strong interest in structure-function relationship of membrane proteins
  • Methodological competence in standard biochemical and molecular biology techniques
  • Experience in mass-spectrometry and bioinformatics is of advantage
  • High degree of commitment, and ability to work in a team in different environments
  • Good communication and written skills in English
Advertising division: ICS-4 - Cellular Biophysics
Reference number: 2019D-150
We look forward to receivingyour application until 10.07.2019

PhD Student in Biology

The Laboratory of Protistology and Aquatic Ecology (Ghent University) and the VIB-UGENT Centre for Plant Systems Biology are looking for a highly motivated PhD student to study cell and life cycle regulation in diatoms. The overall aim of this project is to develop and apply molecular tools to identify and functionally characterize key regulators during life cycle transition in pennate diatoms, using well-established in-house model diatom species. The candidate will apply gene editing techniques, high-throughput sequencing, physiological experiments, high throughput imaging and bioinformatics approaches to target modulators of phase transitions during the life cycle of diatoms and study these within an evolutionary context.

Tasks:

- Gene annotation and basic bio-informatic applications, gene expression studies, testing and validating using CRISPR-CAS9 technology, culturing and physiological experiments, pheromone assay development, live imaging of cell populations using fluorescent probes

- Write scientific publications and contribute to project reporting and proposal writing.

- Supervise bachelor and MSc students during projects and practical courses related to your own research.

Profile of the candidate

You have excellent grades in your bachelor and MSc degree (i.e., you belong to the top 10% of your cohort).

You have a strong interest in molecular biology, genomics/genetics, physiology and experimental biology using cell cultures, bioinformatics, marine and/or freshwater biology.

You preferably have practical experience in one or more of the above topics.

A good knowledge of R and/or a scripting language is an asset.

You have good communication and writing skills and have an excellent knowledge of written and spoken English.

All applications must be received no later than 31/07/2019 at 23:59 (CET) at anja.hondekyn@ugent.be mentioning ref. GOA-2019.

For details click here


Posted on June 12, 2019

PhD student in Laboratory of Structural Bioinformatics

The goal of the project is to understand the evolution of the Rossmann fold, one of the most prominent protein folds encompassing enzymes with >300 different functions. With the aid of bioinformatics methods, including machine learning and molecular simulations, we will reveal the principles that define the cofactor specificity in Rossmann enzymes. These principles will be used to build a “toolkit” for rational re-engineering of cofactor specificity. The proposed project involves collaboration with two partners: (i) Core Facility for Crystallography and Biophysics, University of Warsaw (Poland) and (ii) Department of Biomolecular Sciences, Weizmann Institute of Science (Israel).br /> Project is carried out within the FIRST TEAM programme of the Foundation for Polish Science.

Key responsibilities include:
Design and implementation of machine learning tools for protein sequence and structure analysis

Profile of candidates/requirements:
1. Good knowledge of Python and scientific computing libraries (sci-kit, numpy, pandas, biopython). Experience with high-performance computing and Linux environment

2. Previous experience in machine learning and bioinformatics tools (some of the following: protein sequence/structure analysis, protein design, molecular dynamics, phylogenetic analysis)

3. Good writing and oral communication skills in English

Deadline: 15/07/2019

For details click here


PhD Scholarship in Risk Assessment Modelling (Bioinformatics)

The National Food Institute (DTU Food) invites applications for a PhD position affiliated to the Research Group for Risk Benefit in the Division of Diet, Disease Prevention and Toxicology - a dynamic, sociable and highly ambitious research environment. The position is part of the RAKIP (Risk Assessment Modelling and Knowledge Integration Platform)Initiative, a collaboration between DTU Food, the Federal Institute for Risk Assessment (BfR, Germany) and the French Agency for Food, Environmental and Occupational Health & Safety (ANSES, France). The RAKIP Initiative aims to support the efficient information exchange between models and software tools in the food safety risk assessment domain.

Responsibilities and tasks

Your tasks in the PhD project will be to:
  • Analyse and compare how consumer food handling practices and habits impact exposure to microbial and chemical hazards
  • Explore innovative statistical and modeling methods to better exploit the information of food consumption databases and consumer phase models for risk assessment
  • Apply these methods on actual cases of quantitative risk assessment and/or risk-benefit assessment
  • Share models and results with the whole scientific community involved in food safety

Qualifications
Candidates should have a two-year master's degree (120 ECTS points) or a similar degree with an academic level equivalent to a two-year master's degree.

  • You have a background in food safety and/or microbiology and/or toxicology and/or bioinformatics.
  • You are strong in mathematical modelling and data analysis, and have good programming skills, preferably in R.
  • You have good skills in written and spoken English,
  • You are higly interested in international collaboration, and have excellent communication skills.
  • You are ambitious and have a high motivation for research excellence

Please submit your online application no later than 4 July 2019 (local time).

For details click here


Posted on June 10, 2019

PhD Fellowship Integrated genomics and metabolic diseases modelling

The laboratory CNRS UMR8199 "Génomique intégrative et Modélisation des Maladies Métaboliques" (Integrated genomics and metabolic diseases modelling, http://www.good.cnrs.fr) offers up to five 3-year PhD fellowships designed for outstanding and motivated graduated students of any nationality.Students will integrate one of our world leading teams in the field of diabetes and obesity and will benefit from the expertise of renowned experts in the following areas of research:

- Metabolic functional (epi)genomics and their abnormalities in type 2 diabetes and related disorders
- Molecular pathophysiology of diabetes, obesity and kidney diseases

By joining the CNRS UMR8199 unit (http://www.good.cnrs.fr), you will be part of a world-class multidisciplinary team dedicated to the identification and characterization of genetic variations and to the molecular mechanisms associated with metabolic diseases such as diabetes, obesity and kidney disease, using latest cutting-edge approaches in genetics, genomics, bioinformatics, biostatistics, molecular and cell biology, and animal models. The research unit counts 60 people headed by Professor Philippe Froguel, MD, PhD.

For details click here


PhD Stipend in Genome Sequencing and Mining for fungal quinone gene synthesis clusters

The Department consists of five sections of which three are located in Aalborg with research and teaching in Biotechnology, Chemistry, Biology and Environmental Science, one in Copenhagen on Sustainable Biotechnology and one in Esbjerg on Chemical Engineering. Place of employment of the position is Section of Biotechnology in Aalborg.

As the title implies, the PhD project concerns genome sequencing and bioinformatics mining in order to identify gene synthesis cluster that produce a variety of fungal quinones. The biosynthetic genes responsible for synthesis are usually found in gene clusters regulated by a single promotor region. The purpose is to enable the production and testing of the resulting quinones in redox flow batteries. Additional activities in the project may include genetic enhance of selected quinone production in native hosts. Typically, a constitutive promoter will be recombinantly introduced in front of the regulators, which will allow quinone production under any condition.

Applicants must have a Master of Science (MSc.) or a similar degree in Biotechnology, Biochemistry, Chemical Engineering, Chemistry, or similar from an internationally recognized University with practical research experience within one or more of the following:

  • Practical experience with culturing fungi
  • Practical experience with next generation sequencing
  • Practical experience with DNA purification and cloning
  • Practival experience with genome based bioinformatics
  • Good collaboration skills, team spirit and the ability to work independently
  • An excellent level of both spoken and written English to accommodate scientific communication and dissemination

For more information of The Doctoral School of Engineering and Science: www.phd.engineering.aau.dk

Vacancy number 18-19049

Deadline 20/06/2019

For details click here


Posted on June 07, 2019

PhD position in metagenomics

The Laboratory of Viral metagenomics (part of the Laboratory of Clinical and Epidemiological Virology) at the Rega Institute is headed by Prof. Jelle Matthijnssens, and focuses on the role of the human gut virome in human health and disease. For virome analyses, we use a recently optimized method (NetoVIR) to efficiently investigate viromes in fecal samples. For the analyses of bacteria and eukaryotes we use 16S and 18S approaches in collaboration with the lab of Prof. Jeroen Raes (also in the Rega Institute). The Matthijnssens lab currently holds six PhD students and a lab technician. Our group is now looking for a dynamic and highly motivated new student to join our young and dynamic research team, and to start a 4-year PhD project under the umbrella of the Doctoral School Biomedical Sciences.

The development of the intestinal microbiota is a key process in early life, as it significantly affects the metabolism and immune system of the host. Hence, the establishment of this symbiosis is of crucial importance to achieve and maintain optimal health. The human gut microbiota is a complex ecosystem of bacteria, viruses, fungi and parasites, influenced by external factors such as diet and the environment.

Profile
  • You are passionate about scientific research!
  • You hold a Master of Science degree in Biomedical sciences, Bioengineering, Bioinformatics,Biochemistry, Biology and/or an adjacent field, or are expected to graduate before October 1st 2019.
  • You should have graduated with at least one degree of distinction (>68%, KU Leuven eligibility criterion to start a PhD), although preference will be given to candidates with higher grades.
  • Preferentially,you have experience with next-generation sequencing both in wet lab (BSL2) as well as in silico. Knowledge of scripting languages (R, Python,Unix) is considered a strong plus. Candidates lacking wet lab experience are also encouraged to apply, but will be trained to work in the lab as well.

For details click here


PhD fellowship in Deep Learning for Microbiome Variation

A PhD position is available in the Human Proteome Variation group at The Novo Nordisk Foundation Center for Protein Research (CPR – www.cpr.ku.dk). The Center has been established at the Faculty of Health and Medical Sciences, University of Copenhagen, to promote basic and applied discovery research on human proteins of medical relevance. The Center comprises a wide range of expertise and resources including proteomics, protein production, bioinformatics and general characterization of disease mechanisms.

The Ph.D will work in a multidisciplinary project team focusing on integrating and analyzing human variation data. Within recent years, the microbiota has been established to have an important role in human health and is profoundly investigated to discover microbial interventions. To be able to successfully achieve this, we need the knowledge of which biological components are present, how they interact as a dynamic living system and with the human host.

You hold a master or equivalent in computational biology, bioinformatics or related discipline of biomedical research. You have preferably experience using machine learning and deep learning models. Programming experience in bash/UNIX, R and python is required as well as having worked with big data. Research experience with large-scale microbiome datasets and familiarity with high performance computing clusters is a plus.

Deadline for applications: 17 June 2019, 23:59 p.m. CET.

For details click here


Posted on June 05, 2019

PhD Studentship - The DNA Damage Response in Cancer

The MRC Toxicology Unit is a leading international research institute within the School of Biological Sciences in the University of Cambridge. The research environment provides state of the art research facilities, with excellent opportunities for collaborative interaction within a vibrant community at the University of Cambridge.

This project represents an ideal opportunity to learn a range of state-of-the-art techniques including, basic cell biology, molecular biology and bioinformatics tools to dissect the in vitro and in vivo mechanisms of cancer development. There are a variety of training modules and courses which students are encouraged to attend. In addition, students follow the Toxicology Unit's weekly external and internal seminar programs and are included in the postdoc/student forums which take place each month and offers excellent opportunities for collaboration and career development.

Candidates must expect to obtain qualifications at the level of a first-class or 2.1 Honours Degree in a biological science or related discipline. Full funding is available to UK and EU applicants only. International candidates may apply but will need to fund the difference.

Closing date 28 June 2019

For details click here


Doctoral (PhD) student position in Psychiatric Genomics and Epidemiology

The Department of Medical Epidemiology and Biostatistics (MEB) is among the largest departments of epidemiology in Europe with special focus on increasing our knowledge of the aetiology of different diseases. Our department consists of researchers, doctoral students, biostatisticians, data collectors and database administrators as well as administrative personnel, in total some 250 staff. The department is situated at campus Solna. Further information can be found at ki.se/meb.

Research group We seek a PhD student who will conduct research at the KI-Psychiatric Genomics Institute (KI-PGI). The KI-PGI begins with fundamental genomic findings and then elucidates the implications for patients, clinicians, and neuroscientists. We are deeply collaborative, and we actively work with at least 10 major genetic, psychiatric, neuroscience, and functional genomic groups. We have established, long term collaborations within the KI, Sweden, Europe, the US, and Australia. We have multiple large new datasets, including expansion of the Swedish Schizophrenia Study (S3), Genomic Aggregation Project in Sweden (GAPS), and TRYGGVE2 (an effort to harmonize psychiatric genomics in Denmark, Norway, and Sweden).

You meet the general eligibility requirement for doctoral/third-cycle/PhD education if you:

  1. have been awarded a second-cycle/advanced/master qualification (i.e. master degree) or
  2. have satisfied the requirements for courses comprising at least 240 credits of which at least 60 credits were awarded in the advanced/second-cycle/master level, or
  3. have acquired substantially equivalent knowledge in some other way in Sweden or abroad.*

Last application date 24.Jun.2019 11:59 PM CET

For details click here


Posted on June 03, 2019

PhD candidate Innovative Training Network

NITIATE (lnnate-lmmunometablism as Antiviral Target) is an international Innovative Training Network funded by the European Commission with the goal to train a new generation of young researchers in the emerging field of antiviral immunometabolism, coordinated by the department of Viroscience of Erasmus Medical Centre, Dr. B.G. van den Hoogen. Viral outbreaks and epidemics continue to impose high mortality and morbidity burdens on mankind and animals, thus emphasizing the urgent need for improvement and innovation in the development of new antiviral strategies.

While it is clear that viral replication, metabolic pathways and host immune responses are tightly interconnected, the molecular pathways and impact on viral pathogenesis are not well-defined and will be the focus of lNlTlATE. A detailed understanding of the role of metabolic regulation of the host innate immune response with regard to antiviral response and inflammation, together with knowledge of the strategies used by viruses to exploit these pathways, will fundamentally change clinical intervention in the treatment of pathogenic viral diseases.

We are looking for talented and highly motivated early career researchers educated in biology, infection & immunity, biochemistry or related subjects and experience in cellular biology, (bio)chemistry, immunology and/or virology. We expect dedication and enthusiasm for experimental research, combined with scientific curiosity and the capacity to teamwork in an interdisciplinary environment. Positions are open from August 1st 2019, until the positions are filled (at the latest January 1st 2020) and ESRs will be based in the Netherlands, Ireland, Norway, Sweden, Austria, France or Italy.

For details click here


Phd fellow in Protein Biology

Department of Biology, Faculty of Science at University of Copenhagen is offering a PhD scholarship in protein biology commencing 01.10.2019 or as soon as possible thereafter.  The main focus of the work in the host laboratory is to discover and functionally characterize novel bioactive peptides from animal venoms with potential pharmacotherapeutic application. We use a variety of biochemical and cell biological methods, supported by molecular biology and bioinformatics.

The project will focus on the functional characterization of several newly identified venom peptides to determine their receptor target and investigate evolutionary relationships between these peptides and their molecular target. In addition, the work will involve pharmacological and biophysical characterization and analysis of RNA-sequencing and mass spectrometry datasets.

Applicants should hold an MSc degree in biochemistry/cell biology/molecular biology with good results and good English skills. As criteria for the assessment of your qualifications emphasis will also be laid on previous publications (if any) and relevant work experience.

The deadline for applications is 30 June 2019, 23:59 GMT+2

For details click here


Posted on May 31, 2019

PhD fellow in experimental biophysics

Department of biocomplexity/biophysics, Faculty of Science at University of Copenhagen is offering a PhD scholarship in experimental biophysics commencing 1 September 2019 or as soon as possible thereafter.

The aim of the project is to investigate various aspects of membrane repair in cells. The goal is to identify the key players in membrane repair and in particular the mechanism behind successful repair in cells. Optical techniques will be used both to induce nanoscopic holes in membranes and to shape and manipulate membranes to investigate the affinity of proteins for certain membranes shapes. The ideal candidate should have experience in thermoplasmonics, confocal imaging, optical trapping, cell culturing and Matlab based data treatment. Writing scientific articles and disseminating research at conferences/workshops requires the candidate to have excellent English skills.

Applicants should hold an MSc degree in biophysics or nanoscience with good results and good English skills. Publications in scientific journals will be regarded as an advantage. As criteria for the assessment of your qualifications emphasis will also be laid on previous publications (if any) and relevant work experience.

The deadline for applications is 1 June 2019, 23:59 GMT +2.

For details click here


PhD Position -Understanding the interplay of mutations and selection during cancer evolution

The Centre for Genomic Regulation (CRG) is an international biomedical research institute of excellence, based in Barcelona, Spain, with more than 400 scientists from 44 countries. The CRG shares principles of an interdisciplinary, motivated and creative scientific team that is supported by high-end and innovative technologies and a flexible and efficient administration. CRG has been conferred with a badge of ‘HR Excellence in Research’ by the European Commission, in recognition to its progress in implementing the European Charter for Researchers and the Code of Conduct for Recruitment of Researchers, that among others consists of transparent, merit-based recruitment procedures and attractive work-life balance working conditions.

We are looking for a PhD student to join the lab to help elucidate cancer evolutionary dynamics using population genetics predictions and simulations together with recently published and unpublished cancer sequencing data. The ideal candidate should be highly motivated and eager to work on biological problems using theoretical and computational approaches. Candidates should hold a University Degree and a Master’s Degree in physics, mathematics, statistics, genetics, bioinformatics, computer science or related disciplines within the European Higher Education System (minimum 300 ECTS) or equivalent by September 2019.

Deadline: June 23rd, 2019

For details click here


Posted on May 29, 2019

PhD Position:  Deep Machine Learning for Biotech Data Analysis 

Ghent University is a world of its own. Employing more than 15,000 people and having more than 44,000 students, it is actively involved in education and research, management and administration, and technical and social services on a daily basis. It is one of the largest and most exciting employers in Belgium, offering great career opportunities. With each of its 11 faculties and more than 100 departments implementing state-of-the-art study programmes that are grounded in research in a wide range of academic fields, Ghent University is a logical choice for its employees, as well as its students.

Ghent University Global Campus, South Korea, has a vacancy for a Ph.D. position (Teaching Assistant) in the area of biotech data science, starting from August 26, 2019 (negotiable). It concerns a temporary full-time AAP position for a renewable period of maxium 6 years. As Ghent University Global Campus maintains an equal opportunities and diversity policy, everyone is encouraged to apply for this position. The candidate will work under the supervision of Prof. Wesley De Neve and Prof. Arnout Van Messem at the Center for Biotech Data Science of the Ghent

Last application date Jun 16, 2019 14:47

For details click here


PhD in evolution of stress resistance in bacterial spores

Bacterial spores are the most resistant life forms known. They can survive extremes of heat and pH, and high doses of radiation and disinfectants. For this reason, they are often implicated in the spoilage of processed foods, and some species can additionally cause foodborne infection or intoxication. Traditionally, the resistance of spores to heat and other stresses has been considered a stable property,characteristic for each species, and food processing conditions have been designed based on the resistance parameters documented in the literature.

However, this view is being increasingly challenged,and “super-resistant” spores have occasionally appeared and caused problems in the food industry. In this project you will investigate how fast and how far spores can stretch their resistance to various stresses by making use of adaptive laboratory evolution experiments (ALE). Furthermore, you will unravel the genetic and physiological mechanisms underlying the evolved spore stress resistance by using whole genome sequencing and a range of genetic, biochemical and microbiological approaches.

Profile

  • Talented and enthusiastic molecular microbiology researcher. Master degree in biology, biotechnology, bioengineering, or similar
  • Good knowledge of microbiology, genetics and bioinformatics, including laboratory skills
  • Academic performance showing high aptitude and interest in research
  • Good communicative skills and a collaborative attitude
  • Proficiency of written and spoken English

For details click here


Posted on May 27, 2019

PhD Candidate Computational Enzymology

The Department of Chemistry seeks a motivated and enthusiastic PhD candidate to join the research group of Professor Bjørn Olav Brandsdal and will be part of the research project “Evolutionary principles of biocatalysts from extreme environments” financed by the Research Council of Norway for a four year period (2019-2023). The PhD candidate will be part of the Hylleraas Centre for Quantum Molecular Sciences. The Hylleraas Centre is a Norwegian Centre of Excellence, established by the Research Council of Norway in 2017 for a period of 10 years. About 50 scientists, post-doctoral fellows and PhD students in the field of theoretical and computational chemistry are active at the centre.

The candidate is expected to work together with collaborators at the Department of Cellular and Molecular Biology at Uppsala University in Sweden and the Department of Chemistry at the University of Bristol in UK. The candidate is also expected to spend up to 1 year at Uppsala University, Sweden and/or University of Bristol, UK.

Qualification with a Master’s degree is required before commencement in the position. If you are near completion of your Master’s degree, you may still apply and submit a draft version of the thesis. You must document completion of your degree before commencement in the position.

APPLICATION DEADLINE 13/06/2019

For details click here


PhD fellowship in the group of Cardiac Genetics at the Biomedical institute

The group of cardiac genetics is headed by Associate professor Morten Salling Olesen (https://bmi.ku.dk/english/research/the_ion_channel_group/genetics/). Our lab has a long-standing interest in the genetic component of atrial fibrillation and the disease-causing gene variants. We do large scale genetic studies using GWAS and exome sequencing strategies.

The student recruited for this project will work on existing mutants available in the lab, as well as generate new mutants and transgenics, to aid in the characterisation of mutation on heart development and function. The techniques used to study the potential phenotypes will include both imaging techniques and electrophysiology, using the zebrafish as a model organism. Basic computer skills and an interest in bioinformatics is an advantage as well.

Applicants must have qualifications corresponding to a master’s degree related to the subject area of the project. Prior experience with zebrafish, as a model organism, and molecular biology and genetics is a requirement. An animal experimental course (FELASA B or C) is mandatory for applying for the position. An interest in electrophysiology and cardiac function is also desirable.

Application deadline: 15 June 2019 (23.59pm CET)

For details click here


Posted on May 24, 2019

International CRAG PhD Program 2019

The Doctoral program of the Center for Research in Agricultural Genomics (CRAG) hosts students interested in the areas of plant biology and biotechnology, and plant and farm animal genomics and genetics. The program welcomes applications from motivated national and international students: it is open to students from all countries. PhD students are integrated into any one of the Research Groups at CRAG. Research Groups are organized into four Scientific Programs: Plant Development and Signal Transduction, Plant Responses to Stress, Plant Metabolism and Metabolic Engineering, and Plant and Animal Genomics. PhD students work under the supervision and guidance of a CRAG Group Leader or Researcher for the development of a research project leading to a doctoral dissertation.

Currently, we are inviting applications for 4 PhD positions to start around January 2020:

Eligibility:

1. The positions are aimed at students who have completed one of the following options by September 2019:

  • studies that lead to an official Spanish (or from another country of the European Higher Education Area) university degree in Biology, Biochemistry, Biotechnology, or related areas and that have 300 credits (ECTS), of which at least 60 must correspond to master level.
  • a degree in a non-Spanish university not adapted to the European Higher Education Area that gives access to doctoral studies in Biology, Biochemistry, Biotechnology or related areas.

4. Candidates cannot be in possession of a PhD Degree.

5. Candidates cannot have been hired as predoctoral students for more than 12 months before the start of the CRAG PhD position

6. Candidates cannot have started a pre-doctoral fellowship funded by the Spanish “Plan Estatal de Investigación, Desarrollo e Innovación Tecnológica” or any previous “Plan Nacional”.

Applications will be accepted until June 30, 2019

For detail click here


Doctoral (PhD) student position in Genome Fragility

A doctoral student is admitted to third-cycle/doctoral education. A doctoral education consists of supervised research, combined with courses and other educational activities. An individual study plan is established for each doctoral student. For a doctoral degree, the equivalent of four years of full-time doctoral education is required.

The Bienko-Crosetto Laboratory is located at SciLifeLab Stockholm (www.scilifelab.se), an interdisciplinary center for life sciences featuring state-of-the-art facilities and a broad range of groups working at the interface between biology, medicine, and computational sciences. The main scientific interest in the Crosetto group is in understanding why certain parts of the human genome break more often than others, and how DNA transcription and 3D genome architecture influence genome fragility. In particular, we are interested in deciphering how transcription-associated DNA breaks contribute to the formation of DNA copy number alterations and other mutations associated with cancer and neurodevelopmental disorders.

General eligibility requirement

You meet the general eligibility requirement for doctoral/third-cycle/PhD education if you:

  1. have been awarded a second-cycle/advanced/master qualification (i.e. master degree) or
  2. have satisfied the requirements for courses comprising at least 240 credits of which at least 60 credits were awarded in the advanced/second-cycle/master level, or
  3. have acquired substantially equivalent knowledge in some other way in Sweden or abroad.*

Reference number 2-3024/2019

Last application date 02.Jun.2019 11:59 PM CET

For detail click here


Posted on May 22, 2019

Doctoral (PhD) student position in translational control of the macrophage phenotype

At the Department of Oncology-Pathology basic, translational and clinical research and educational activities related to cancer is carried out. Approximately 300 people from over 40 nations are currently working at the department. About 30 research groups with various cancer research profiles are involved and we have around 110 PhD students. The Department of Oncology-Pathology is responsible for undergraduate courses in Pathology, Oncology and Forensic Medicine for medical students, as well as for Tumor biology courses for biomedicine students and Pathology courses for opticians.

A doctoral student is admitted to third-cycle/doctoral education. A doctoral education consists of supervised research, combined with courses and other educational activities. An individual study plan is established for each doctoral student. For a doctoral degree, the equivalent of four years of full-time doctoral education is required.

General eligibility requirement

You meet the general eligibility requirement for doctoral/third-cycle/PhD education if you:

  1. have been awarded a second-cycle/advanced/master qualification (i.e. master degree) or
  2. have satisfied the requirements for courses comprising at least 240 credits of which at least 60 credits were awarded in the advanced/second-cycle/master level, or
  3. have acquired substantially equivalent knowledge in some other way in Sweden or abroad.*

Skills Applications are welcome from talented students with degrees in biostatistics, bioinformatics or equivalent; or students with degrees in molecular biology or biomedicine with a strong interest in statistics and analyses of large data sets. Documented post-graduation experience within the field of statistical and/or bioinformatics analysis of data from medical or biomedical research projects is preferable but not necessary. An understanding of mRNA translation and/or cancer biology is an advantage.

Reference number 2-2471/2019

Last application date 11.Jun.2019 11:59 PM CET

For detail click here


PhD Student in Hematopoietic Stem Cell Biology/Immunology

The Institute of Immunology is a theoretical institute of the Medical Faculty, which is primarily dedicated to research. Here, questions in the area of autoimmunity, tumor immunology and the regulation of immune responses are dealt with. Furthermore, the institute carries out considerable courses for medical and biology students. Finally, the institute performs the entire autoantibody diagnostics for the University Hospital.

Our group investigates how hematopoietic stem cells and progenitor cells participate and interact in the complex process of blood cell generation. The research project focuses on DNA damage recognition by the cGAS/STING immune pathway in the hematopoietic system and its role in leukemia development. Methods include mouse genetics, hematopoietic stem cell transplantation, multi-color flow cytometry, single cell transcriptomics as well as a broad range of basic molecular and cell biology techniques.

Your profile :

  • Master’s degree (or equivalent) in biology, medicine, pharmacy or related subjects
  • Practical experience in one of the following research areas is desired: cell biology, immunology, molecular biology, bioinformatics or computational biology
  • Scientific enthusiasm and intrinsic motivation
  • Ability to integrate into a scientific team and a good command of the English language

For detail click here


Posted on May 20, 2019

PhD scholarship in Metagenomics and Antimicrobial Resistance

The Genomic Epidemiology Research Group, has as the primary task is to conduct targeted research with the aim of predicting and preventing infectious diseases in humans and animals, and supporting global detection, surveillance and control, with a specific focus on AMR. The research group combines expertise in conventional and molecular microbiology with epidemiology and bioinformatics and act as EU and WHO reference centre for AMR.

Responsibilities and tasks
  • Your main responsibility will be to analyze the occurrence of AMR genes in relation to origin of the metagenomics data and in relation to bacterial composition and other genes.
  • You will accomplish this using different bioinformatics tools and machine learning to determine association between AMR-genes in metagenomics datasets.
  • You will communicate research results by presenting data at project meetings and international conferences, and write reports and manuscripts for publication.

Qualifications Candidates should have a two-year master's degree (120 ECTS points) in bioinformatics or a similar degree with an academic level equivalent to a two-year master's degree.

Please submit your online application no later than 29 May 2019 (local time).

For detail click here


International PhD program in protein biotechnology

BioToP offers an inter- and multi-disciplinary research-based doctoral education at the interface of basic and applied science in the field of protein biotechnology. BioToP offers a challenging scientific environment with state-of-the-art facilities and provides comprehensive and thorough up-to-date research training in the fields of:

  • structure-function analysis, engineering and design of proteins
  • protein synthesis, targeting and post-translational modifications
  • expression systems and cell factories
  • bioinformatics and molecular modelling

Highly qualified and motivated students of any nationality are invited to apply for the 3-year studentships. Funding will be according to the salary scheme of the Austrian Science Fund. Additionally students will receive funding for research stays abroad and for the participation at international conferences.

Application deadline: July 3rd, 2019

For detail click here


Posted on May 17, 2019

PhD position in pancreatic cancer bioinformatics

Department of Biology, Faculty of Science at University of Copenhagen is offering 1 PhD scholarships in Marie Skłodowska-Curie Actions Innovative Training Networks on pH and Ion Transport in Pancreatic Cancer (pHIoniC) from October 2019. This pHIonic training network is financed by the European Commission Horizon 2020. The project is a collaboration between 10 academic and 3 industrial partners from 7 European countries. The consortium brings together highly synergistic expertise in the field of ion transport and cancer research.

The specific PhD project will be within Prof Sandelin’s group at the Bioinformatics Centre at University of Copenhagen. The group is a world leader in medical transcriptomics and gene regulation biology. Examples of our work include promoter-based classification of inflammatory bowel disease (Nat Commun. 2018 9(1):1661), enhancer transcription (Science 2015 347(6225):1010-4) and the creation of enhancer atlases across human cell types (Nature. 2014 507(7493):455-461)

Applicants should hold, or be close to completing, an MSc in Bioinformatics or related fields. In particular, we require that candidates can program in a script language (e.g. Python) and R, and have experience in analysing high-throughput sequencing data in R and unix systems. Knowledge of statistics, cancer biology and genetics are considered great advantages. Excellent command of spoken and written English is required. As criteria for the assessment of your qualifications, emphasis will also be laid on previous publications (if any) and relevant work experience.

The deadline for applications is 15 June 2019, 23:59 GMT +1.

For details click here


Doctoral Researcher in Bioinformatics

The Leibniz Institute for Natural Product Research and Infection Biology – Hans Knöll Institute – (Leibniz-HKI, www.leibniz-hki.de) investigates the pathobiology of human-pathogenic fungi and identifies targets for the development of novel natural product-based antibiotics. The Research Group Systems Biology and Bioinformatics invites talented and highly gifted candidates to apply for a Doctoral Researcher (f/div/m) in Bioinformatics in the domain of genomics and/or metabolic modelling to develop novel therapeutic treatments for human diseases. The position is starting on 1st of August 2019 or soon after for three years.

The Systems Biology & Bioinformatics (SBI) group of the Leibniz-HKI in Jena, Germany, is seeking one PhD candidate in the domain of genomics and/or metabolic modelling to develop novel therapeutic treatments for human diseases. SBI is active participant of several national and international collaborative efforts to tackle infectious diseases. The successful candidate is expected to lead bioinformatics projects and develop bioinformatics pipelines for understanding infectious processes by pathogens. The successful candidate is expected to interact closely with wet-lab scientists for discovering new molecular mechanisms of pathogens.

Your profile:

A strong interest in conducting collaborative research on the topic outlined above is paramount. Candidates are expected to be interested in working at the boundaries of several research domains.

  • MSc degree in Systems Biology, Computational Biology, Bioinformatics, Biophysics, Computer Science or a related discipline
  • Knowledge and experience in the analysis of biological high-throughput data
  • Knowledge in statistical methods in the context of biological systems
  • Experience with programming (Python, Perl, C++, R)
  • Well-developed collaborative skills

Job Advertisement HKI-09/2019

Complete applications in English consisting a letter of interest, CV, complete list of publications, brief statement of research experiences, a list of three potential references, and full academic record (copies of degree certificates) should be submitted by June 30, 2019 via the online application system.

For details click here


Posted on May 15, 2019

TWO PHD POSITIONS: COMPUTATIONAL/DEEP LEARNING IN NEUROONCOLOGY

We are looking for enthusiastic and highly motivated applicants holding, or about to obtain, a Master degree in Bioinformatics, Medical Informatics or similar. The candidates should have strong expertise in R, Python, Shell and Unix operating systems. Experience in Docker and Machine Learning / Deep Learning is helpful. Preference will be given to applicants with previous experience in one or more of the following areas: analysis of MethylationEPIC array, gene expression array, RNA-seq, integrative quantitative and post-quantitative analyses from multiple omics datasets, image analysis of histological data.

Our international team offers an open, supportive, dynamic and motivating academic environment with excellent training opportunities including the PhD graduate program of the International Giessen Graduate school for Life Sciences (GGL http://www.uni-giessen.de/cms/fbz/zentren/ggl) with the possibility to work on cutting edge research projects. We have won a number of external research grants and are involved in several national and international collaborative projects.

Please send your application as a single PDF: cover letter, your CV, certificates of your qualifications, your publication list and the contact details of at least two referees until 15.07.2019 to PD Dr. Attila Németh (Attila.Nemeth at patho.med.uni-giessen.de). Applicants with disabilities but otherwise equal qualifications will be preferred.

For detail click here


Doctoral (PhD) student position in Top-Down Mass Spectrometry of Proteins

A doctoral student is admitted to third-cycle/doctoral education. A doctoral education consists of supervised research, combined with courses and other educational activities. An individual study plan is established for each doctoral student. For a doctoral degree, the equivalent of four years of full-time doctoral education is required.

The doctoral student project and the duties of the doctoral student The successful candidate will work in collaboration with other members of the research group to develop new top-down protein analysis techniques based on novel fragmentation reactions in the gas phase and study the structure and properties of proteins and their complexes, including antibodies. The project involves participation in building a new TopSpec apparatus for top-down mass spectrometry, performing experiments, data analysis and building physico-chemical theoretical models of the concerned processes.

Eligibility requirements for doctoral education
In order to participate in the selection for a doctoral position, you must meet the following general (A) and specific (B) eligibility requirements at latest by the application deadline.

ou meet the general eligibility requirement for doctoral/third-cycle/PhD education if you:

  1. have been awarded a second-cycle/advanced/master qualification (i.e. master degree) or
  2. have satisfied the requirements for courses comprising at least 240 credits of which at least 60 credits were awarded in the advanced/second-cycle/master level, or
  3. have acquired substantially equivalent knowledge in some other way in Sweden or abroad.*

Reference number 2-2875/2019

Last application date 03.Jun.2019 11:59 PM CET

For detail click here


Posted on April 17, 2019

PhD position in neuroscience/bioinformatics

Synapses are the computational units of the brain and synaptic dysregulation is central to many brain disorders (‘synaptopathies’). However, systematic annotation of synaptic genes is currently lacking. Together with the Broad Institute in Boston, the CNCR has recently established SynGO (www.cncr.nl/projects/syngo), an international consortium of 20 expert labs worldwide that produced >1100 expert-curated annotations of synaptic genes. This project aims to utilize the valuable SynGO resource for structural, functional and evolutionary analyses of synapse data.

Job description
As a potential PhD student your main tasks and responsibilities are:

  • Development of additional data analysis tools for the SynGO online web portal
  • Structural, functional and evolutionary analyses of synapse data in SynGO
  • SynGO database expansion, guidance of expansion by researchers in the field
  • Publish analyses in the best peer-reviewed journals and provide progress reports to funding sources
  • Requirements We are looking for a junior scientist with the following qualifications. a master degree in biomedical sciences with neuroscience specialization
  • hands-on experience with bioinformatics (preferably R). Web design experience is an advantage
  • excellent organizing skills (communication with SynGO consortium partners)
  • a strong motivation to pursue a career in science

Are you interested in this position? Please apply via the application button and upload your curriculum vitae and cover letter before 01/05/2019.

For detail click here


PhD Position F/M PhD position on Manifold learning for structural bioinformatics

Grenoble Rhône-Alpes Research Center groups together a few less than 800 people in 35 research teams and 9 research support departments. Staff is localized on 5 campuses in Grenoble and Lyon, in close collaboration with labs, research and higher education institutions in Grenoble and Lyon, but also with the economic players in these areas. Present in the fields of software, high-performance computing, Internet of things, image and data, but also simulation in oceanography and biology, it participates at the best level of international scientific achievements and collaborations in both Europe and the rest of the world.

We are looking for creative, passionate and hard-working individuals from applied math / computer science background with exceptional talent for computer science and mathematics and interest in computational chemistry / biophysics. Good knowledge of C++ / signal processing / machine learning / orthogonal polynomials / structural chemistry will be an asset. Excellent oral, written and interpersonal communication skills are essential (working language will be English – knowledge of French is a plus).

Deadline to apply : 2019-04-28

For detail click here


Posted on April 15, 2019

PhD student with strong interest in metagenomics for diagnosis of swine viral diseases

Veterinarians and medical doctors are currently hampered when they face infectious diseases. They should be able to ask the simple question: “What is in this sample?”, without prior knowledge. In swine, respiratory and enteric diseases are caused by complexes of different viruses and bacteria and we currently lack understanding of the importance of certain pathogens in the disease complex. A viral metagenomics nanopore sequencing (MinION) platform was recently implemented at the Laboratory of Virology of the Faculty of Veterinary Medicine and is being validated as a diagnostic tool for viral disease complexes in swine (Theuns et al., 2018, Scientific Reports). As PhD student you will take the lead in developing new and improved protocols for viral sequencing on the nanopore platform and will perform bioinformatics analyses. Spiking experiments, well-defined field samples and clinical samples will be continuously available to achieve this goal. Internal & process controls will be setup in preparation of diagnostics to serve veterinarians in the field.

Profile of the candidate:

  • Master’s degree in Bioscience Engineering (Cell and Gene Biotechnology) (last year students are encouraged to apply)
  • Motivated to obtain a PhD in Veterinary Sciences
  • Willing to apply for a VLAIO Baekeland bursary in 2020
  • Entrepreneurial, proactive mindset & high level of independence
  • Strong communication skills
  • Strong interest in infectious diseases
  • Experience with next- or third-generation sequencing is an asset
  • Experience with/motivation to learn bioinformatics is an asset

Send your motivation letter and curriculum vitae to Dr. Sebastiaan Theuns (sebastiaan.theuns@ugent.be) and Prof. Dr. Hans Nauwynck (hans.nauwynck@ugent.be) before 31st of May 2019

For detail click here


PhD position in Medical mass spectrometry

Uppsala University is a comprehensive research-intensive university with a strong international standing. Our mission is to pursue top-quality research and education and to interact constructively with society. Our most important assets are all the individuals whose curiosity and dedication make Uppsala University one of Sweden’s most exciting workplaces. Uppsala University has 44.000 students, 7.100 employees and a turnover of SEK 7 billion. Department of Pharmaceutical Biosciences has 140 employees and a number of visiting researchers and fellow students. The department has twelve research groups with a common administration and we are doing research and teaching in pharmaceutical cell biology / biochemistry, pharmacology, pharmaceutical and drug addiction, pharmacotherapy, pharmacokinetics, pharmacometry, clinical pharmacy, bioinformatics, imaging mass spectrometry, molecular neuropharmacology, immunology, biological drugs / biotechnology as well as toxicology and drug safety.

You are expected to conduct advanced research within medical mass spectrometry, by construction of novel interfaces that enable studies of ligand–receptor interactions, both with quantitative and qualitative analysis. You will work with biological cells for overexpression of target membrane proteins such as G-protein coupled receptors and ion channels. This is an important part of the project to increase our knowledge about the structure–function relationship of these receptors. Instrumentally the project will be conducted on nanoLC/CE-ESI-MS in combination with molecular labeling such as HDX.

Requirements: Suitable background is a degree from the program in chemistry or biology, engineering program in chemistry or biotechnology, pharmacist or other similar training (at least 240 credits).

Last application date 03.May.2019 11:59 PM CET

For detail click here


Posted on April 12, 2019

PhD position in bioinformatics - Computational Systems Biology

There is a vacancy for a PhD position in Computational Systems Biology at the Department of Informatics. The position is for a fixed-term period of 3 years with the possibility of a 4th year. The position is financed by Trond Mohn Foundation. The Department of informatics has seven research groups that deliver research and education at a high international level in algorithms, bioinformatics, information security, machine learning, optimization, programming theory, and visualization. All the groups are successfully co-funded by research grants, among others by the European Research Council (ERC). The department offers state of art education at Bachelor, Master and PhD levels.

Qualifications and personal qualities:

  • Applicants must hold a master's degree or an equivalent degree in Bioinformatics, Physics, Mathematics or a related field, or must have submitted his/her master's thesis for assessment prior to the application deadline. It is a condition of employment that the master's degree has been awarded.
  • Applicants must be able to work independently and in a structured manner, and demonstrate good collaborative skills.
  • Applicants must be proficient in both written and oral English.
  • Personal and relational qualities will be emphasized. Ambitions and potential will also count when evaluating the candidates.

Special requirements for the position

  • Experience of working in a numerical computing environment (Python, R, Matlab) is a requirement.
  • Experience of programming in at least one programming language (C, C++, Java) is a requirement.
  • Experience with the modelling of dynamical systems in terms of differential equations is a requirement.
  • Background knowledge in biology or medicine is an advantage.

Deadline 30.04.2019

Jobbnorge ID 168567

For detail click here


PhD Scholarships in Biomedical Research

The University of Queensland Diamantina Institute (UQDI) was established in 2007 and forms a major research centre within the Faculty of Medicine. The aim of the Institute is to develop a better understanding of the molecular and cellular basis of disease, and to translate that understanding into practical outcomes for patients. Based at the Translational Research Institute (TRI) at the Princess Alexandra Hospital teaching campus in Brisbane, the Institute has more than 300 researchers and students who work closely with clinicians in the areas of cancer, immunology and genomic medicine.

Undertaking your Doctor of Philosophy (PhD) degree at UQDI will provide you with the foundations for a career in biomedical research. You will be mentored by world leading researchers, and you will have the opportunity to translate your discoveries into new treatments for patients.

Expressions of Interest are invited from outstanding and enthusiastic, international and domestic, science or medical graduates ideally with a background in either biomedicine, genomics, bioinformatics, computational biology or any other relevant scientific discipline. Candidates will have a first-class Honours degree, a research masters degree, a coursework masters with a relevant research component, or equivalent degree, and should be eligible for UQ scholarship consideration. Applicants must fulfil the PhD admission criteria for the University of Queensland, including meeting English language requirements, and demonstrating excellent capacity and potential for research. Demonstrated research capacity (research outputs such as publications or conference presentations) will be highly regarded.

Applications close: 08 May 2019 (11:55 PM) E. Australia Standard Time

For detail click here


Posted on April 10, 2019

PhD positions (f/m/d) in Cancer Biology / Immunology and Bioinformatics

The Klinikum rechts der Isar university hospital of the Technical University of Munich is a major European center of medical care and education and teaching with 1.161 beds and around 5.500 employees. Every year around 60,000 patients benefit from inpatient and around 250.000 patients from outpatient care. The hospital is a supra-maximal care home that covers the entire spectrum of modern medicine. Since 2003, the Klinikum rechts der Isar is an institute of public law of the Free State of Bavaria.

We are deploying genetic models and bioinformatics to study molecular, immunological and translational aspects of pancreatic cancer. One focus in the past few years was the development of novel preclinical models and organoid-based orthotopic transplantation strategies to mechanistically analyze subtypes of pancreatic cancer.

What you can expect:

  • We are a young and enthusiastic team and offer intensive training and mentoring.
  • The successful candidates will have the opportunity to learn a wide spectrum of genetic, molecular and cell biology, biochemical as well as immunological and bioinformatics techniques.

Your profile and desired skills

  • We are looking for self-motivated bright individuals with a Diploma or Masters Degree in bioinformatics, biochemistry, biology, molecular/translational medicine or related subjects.
  • Previous exposure to and experience with basic biochemical and molecular biology techniques, proteomics or bioinformatics as well interests in molecular aspects of cancer research is essential.

For detail click here


 Ph.D. Student Position software development, bioinformatics, molecular simulations and modeling

The project “A coarse-grained method for RNA 3D structure modeling, with emphasis on non-canonical base pairing" (PI: dr. Michal Boniecki) is carried out as the OPUS 2016/23/B/ST6/03433 grant of the Polish National Science Center. The PhD student will be selected from candidates in an open competition, according to the procedure complying the rules for granting scholarships for young scientists in research projects funded by the National Science Centre (NCN Council Resolution No. 96/2016 dated. October 27, 2016 r.). The goal of the project is to further develop SimRNA, which is now one of the best methods for 3D RNA structure prediction and simulations, in the field. We intend to improve the prediction of non-canonical base-pairs, and to improve the overall specificity. Additional tasks include RNA 3D structure prediction with additional restraints and setting up a web server. We provide opportunities for interdisciplinary collaborations within the team, in the institute, as well as with international partners.

Required for this position:
  • M.Sc. (or equivalent) in computer science, physics, molecular biology, chemistry or related area (defended before the start of the work on the project)
  • Basic knowledge in the fields of physics, mathematics, computer science
  • Understanding the basic concepts of physics, including interaction, dynamics, thermodynamics
  • Understanding issues of 3D geometry, derivation of statistical potentials, running simulations, working in Linux
  • Eligibility for PhD studies in Poland
  • Documented experience in programming/designing in C/C++ and/or Python
  • Proactive approach to achieving tasks and objectives, good interpersonal skills, collaborative attitude
  • Experience in bioinformatics, molecular modeling etc. is advantageous, but not essential.

Deadline for applications is April 22th, 2019. Preferred job starting date: no later than June 1st, 2019.

For detail click here


Posted on April 08, 2019

PhD fellowship in Mass spectrometry imaging of plant metabolites

Department of Pharmacy is offering a three-year PhD fellowship in Mass spectrometry imaging of plant metabolites. The PhD fellowship is financed by the EU Horizon 2020 - Research and Innovation Framework Programme. The fellowship is available from June 1st 2019 or as soon as possible thereafter.

The Ph.D. project is part of a larger research project which aims to implement biosynthesis of important precursors for commercial drug substances into yeast cells. The drug substance precursors are currently produced in plants at relatively low yield, and the aim of the Ph.D. project is to characterize the plant biosynthesis of the compounds in great detail. This will be done by mass spectrometry imaging by DESI and MALDI of several different alkaloids in different plant samples. The knowledge obtained in these experiments will be used to assess which segments of the biosynthesis to focus on in yeast refactoring.

Required qualifications  
As an applicant you must have:
  • Obtained a Master´s degree in chemistry, pharmacy, plant biology or related areas prior to the starting date
  • Fluency in English and excellent communication skills
Preferred qualifications 
  • Practical experience with mass spectrometry, e.g. LC-MS or preferably mass spectrometry imaging will be considered a great advantage.
  • Knowledge of biosynthesis of natural products in plants will be considered an advantage.
Job description 
Your key tasks as a PhD fellow at the Faculty are to:
  • Carry through an independent research project under supervision
  • Write scientific articles and the PhD thesis on the grounds of your research project
  • Complete PhD courses or other equivalent education corresponding to approx. 30 ECTS points
  • Obtain experience with teaching or other types of dissemination related to your PhD project
  • Participate in the undergraduate teaching of students in pharmaceutical sciences

The deadline for applications is 7 April 2019

For detail click here


PhD Position in Arbovirology

Uppsala University is a comprehensive research-intensive university with a strong international standing. Our mission is to pursue top-quality research and education and to interact constructively with society. Our most important assets are all the individuals whose curiosity and dedication make Uppsala University one of Sweden’s most exciting workplaces. Uppsala University has 44.000 students, 7.100 employees and a turnover of SEK 7 billion. The Department of Medical Biochemistry and Microbiology (IMBIM) at Uppsala University constitutes a broad and international research and teaching environment with over 250 scientists, including over 40 PhD students. Research activities within the department focus on three principal domains: Biochemistry & Molecular Cell Biology, Genomics, and Microbiology & Immunology.

Qualifications: Candidates should hold a M.Sc. degree or equivalent, with a focus on ecology, infection biology, microbiology or bioinformatics is a requirement. We are looking for a candidate with solid basic biological/ecological knowledge and preferably laboratory experience in microbiology. Good knowledge of statistics is appreciated. The candidate is expected to take own initiatives as well as to collaborate with national and international colleagues both within and outside of the group. Good ability to master English in written and oral form is a requirement. Significant weight will be given to personal suitability.

Please submit your application by April 26, 2019, UFV-PA 2019/1189.

For detail click here


Posted on April 05, 2019

PhD Studentship: Computational Biology

Due to recent advances in sequencing technologies, we can generate unprecedented amounts of genomic data, but clinical interpretation of that data has lagged behind, and is one of the major challenges in healthcare at present. For patients with rare disorders, even after whole genome sequencing, generally half of patients do not get a molecular diagnosis. With estimates that up to 50% of disease causing mutations affect splicing, gaining a better understanding of how splicing operates under normal conditions, as well as the types of mutations that can perturb the process has huge potential for immediate impact.

This project will help establish what the “best practices” are for interpreting mutations affecting splicing, and how this can be applied in a clinical setting. Optimal in silico methodologies will be developed and applied to genetic data from patients with rare diseases in the 100,000 genomes project to help improve diagnostic rates. Machine learning techniques will be applied to large genomic and transcriptomic datasets to “learn” the genetic code determining normal and disease causing aberrant splicing.

The student will work in a cross-disciplinary, highly collaborative and supportive environment with wet lab scientists, computational biologists, clinicians and computer scientists. They will learn computational approaches to biological problem solving (including bioinformatics, DNA and RNA sequencing data analysis methods, and machine learning), as well as developing a firm understanding of splicing, clinical informatics, and medical genetics. Dependent on experience, the student will be supported to attend any relevant training courses and present at conferences useful to themselves and the project. The ideal candidate will have a strong background in genetics, bioinformatics, computer science, or a related field, and have a strong interest in the other disciplines.

For detail click here


PhD candidate in Computational network biology

The Institute of Network Biology – INET – is a leading institution in protein-interaction network analysis. A deep understanding of principles and specifics of protein interaction network function, and how perturbations by microbes and evolutionary processes result in altered phenotypes, are the key aspects guiding our research agenda. The understanding of molecular networks and their dynamics by natural perturbations will facilitate their targeted modulation for applications in medicine and bio economy. The Institute is based on an interdisciplinary approach that combines experimental high-throughput protein-interaction mapping and mechanistic studies with computational analyses ranging from graph theory and statistics, machine learning, phylogenetic analyses to quantitative modeling.

Your Qualifications

  • A background in bioinformatics, systems or network biology, complex systems or comparable is expected.
  • Candidates should be interested to bio-computational analyze protein interaction networks on a systematical level.
  • Familiarity with biological data bases and scripting languages as well as the command of programming languages (Python, C, C++ or Java) is required.
  • Candidates should be conceptually familiar with high throughput settings and analyzing of high throughput data in a systems biology context.
  • Excellent oral and written communication skills as well as the ability to collaborate effectively with a diverse multidisciplinary and multicultural team are necessary.
  • A proactive and independent thinking personality devoted to science and motivated to search for innovative research solutions would fit into our research team.

We are looking forward to receiving your comprehensive online application (including CV, letter of motivation, publication list, transcripts of degrees, references and other relevant information) until 07.04.2019.

For detail click here


Posted on April 03, 2019

PhD student computational cancer genomics

We are looking for a motivated and ambitious PhD student to work on a project entitled “Immunoediting and immune evasion mechanisms in the treated and untreated cancer genome”, under the supervision of prof. Jimmy Van den Eynden. Using computational approaches and public cancer genome datasets (e.g. from The Cancer Genome Atlas), the aim of this PhD project is to better understand how the evolving cancer genome is shaped by interactions with the immune system. Genomic alterations will be identified in relation to different types of infiltrating immune cells (e.g. T cells, natural killer cells, …), in both the untreated cancer genome and following treatment with immunomodulating agents.

Results of this project can be exploited to predict differential responses to cancer immunotherapy. The selected candidate will analyse large (cancer) genome datasets using a variety of available bio-informatics tools. Programming will be primarily performed in R using Bioconductor packages, with special attention for computational research reproducibility. The selected candidate will be offered a fulltime 4-year PhD position at the unit of Anatomy and Embryology (Dpt. of Human Structure and Repair). He/she will be encouraged and supported to apply for additional external funding.

Profile of the candidate

  • Applicants should hold a MSc degree in bio-informatics, biological disciplines (e.g. biomedical sciences, medicine, bioengineering science or equivalent) or computer science. Master students that obtain such a degree later this academic year can also apply.
  • Candidates with a biomedical background are expected to demonstrate basic programming experience (e.g. R, Linux bash, Python).
  • Candidates with a computational background should demonstrate basic biology knowledge.
  • Both knowledge of cancer biology/genomics and experience with R and Bioconductor are considered important assets.
  • Excellent written and oral English communication skills are required.
  • Applicants should be able to work in team as well as independently and have a critical and creative mindset.

Last application date Jun 30, 2019 23:59

For detail click here


Multiple PhD positions in Life sciences/ Bioinformatics

The laboratories of Prof. Dr. Oliver Schilling and Dr. Peter Bronsert at the Institute of Surgical Pathology, University Medical Center Freiburg, Germany are seeking applications for Multiple PhD students (in the following topics: Proteome Biology of Solid Tumors; Proteome Biology of Cardiac Remodelling; Liquid Biopsy Biobanking and Proteome Profiling; Proteomics Informatics and Software Development)

The positions are funded by the ERA PerMed scheme or by intramural sources. The Schilling laboratory focuses on translational and biomedical proteomics. We combine explorative, targeted, and spatially resolved mass spectrometry based proteomics with bioinformatic tools. In addition, we pursue in vitro functional studies to mechanistically underpin our proteomic findings. Based on a number of recently developed and funded projects, we now have multiple PhD positions available in any of the following areas: proteome biology of solid tumors; proteome biology of cardiac remodelling; liquid biopsy biobanking and proteome profiling; proteomics informatics and software development.

The ideal candidate should have:

  • a life sciences degree (e.g. biology, biochemistry, molecular medicine, pharmacology) or a degree in bioinformatics or computer science
  • very good scientific writing skills and fluency (both oral and written) in English
  • a great, pro-active and open-minded work attitude, a strong interest in translational research, and very * good problem-solving skills

For detail click here


Posted on April 01, 2019

PhD student position for a Biostatistician/Molecular Biologist

Erythrocyte invasion is a complex process involving multiple interactions between Plasmodium merozoites and host erythrocytes. Unlike P. falciparum, which can use multiple erythrocyte receptors for invasion and has merozoite proteins with overlapping and redundant receptor-binding functions, invasion of human erythrocytes by P. vivax merozoites primarily relies on the interaction between the P. vivax Duffy Binding Protein (PvDBP) and the erythrocyte Duffy antigen receptor for chemokines (DARC). Consequently, PvDBP is considered a promising candidate for a P. vivax malaria vaccine.

The PhD student will be strongly involved in the first part of the project. Our objective is to explore the natural variation of the reticulocyte invasion protein repertoire. To this end, we will compare the characteristics of the genes/alleles (single nucleotide polymorphisms (SNPs) and copy number variations (CNVs)) encoding proteins involved in invasion pathways in P. vivax isolates collected from Duffy-negative and Duffy-positive patients. We will search for enrichment of specific traits in genes encoding invasion-related proteins in P. vivax strains isolated from Duffy-negative reticuloctyes.

Your skills

– M2 in bioinformatics, or in molecular biology with bioinformatics skills

– Ability to work in a team and on own initiative

– Excellent leadership and communication skills in English

– Have an analytical approach to problem solving.

For detail click here


PhD student in pharmaceutical sciences within Molecular Pharmaceutics

Uppsala University is a comprehensive research-intensive university with a strong international standing. Our mission is to pursue top-quality research and education and to interact constructively with society. Our most important assets are all the individuals whose curiosity and dedication make Uppsala University one of Sweden’s most exciting workplaces. Uppsala University has 44.000 students, 7.100 employees and a turnover of SEK 7 billion.

The PhD student will linked to the Drug Delivery Research group. The research group provides a strong international research environment and has about 40 members of which 10 are PhD students, 10 are postdocs and 15 are researchers and professors. The group takes a multidisciplinary approach and combines bioinformatics and computational chemistry with cell- and molecular biology, biopharmaceutics, pharmaceutics and physical chemistry to find new ways to predict and define rate-limiting barriers to the absorption and organ distribution of different types of drugs.

Requirements:

An MSc degree in a relevant field is required. The ideal candidate is highly motivated, organized, reliable team player that can also work independently and has thorough education and strong interest in the research field.  Candidates must be fluent in English.

Additional qualifications:

Previous experience with experimental setups, the wet-lab, bioinformatics and computer modelling are beneficial.

The successful candidate will devote most of the time towards his/her research level education. Other service activities within the department, e.g. teaching and laboratory maintenance are included within the framework of the education.

For detail click here


Posted on March 29, 2019

PhD scholarship in wheat genomics and statistical modeling

The Faculty of Biosciences at the Norwegian University of Life Sciences (NMBU) has a vacant 3-year PhD–position related to genomic selection for disease resistance in wheat. The aim of the PhD project is to develop genomic selection strategies for disease resistance in wheat, with focus on stripe rust and fusarium head blight resistance as case studies. The position is part of the recently funded SusCrop ERA-NET project “Knowledge-driven genomic predictions for sustainable disease resistance in wheat” (WheatSustain). It is a collaborative research project with partners from Austria, Germany, Ireland, Norway, Canada, Mexico and USA. National and international travels will be expected of the Ph.D. candidate.

Qualifications and skills
The successful applicant must meet the conditions defined for admission to a PhD programme at NMBU. The applicant must have an academically relevant education corresponding to a five-year Norwegian degree programme, where 120 credits are at master's degree level. The applicant must have a documented strong academic background from previous studies, and be able to document proficiency in both written and oral English.

Required academic qualifications

  • MSc degree in plant breeding, molecular genetics, bioinformatics, statistical genomics or related fields that are relevant for the research project.
  • Good scientific writing skills.

Desired academic qualifications

  • Experience with genomic prediction modeling, computer simulation, or statistical data analysis.
  • Familiarity with machine learning methods.
  • Some basic knowledge of plant science and plant pathology

Application deadline: April 17th 2019

For detail click here


PhD position at The Department of Molecular Biology

We are looking for a PhD student in Molecular biology, with a focus on molecular microbiology. The position is at the Department of Molecular Biology at Umeå University and is temporary for four years to start in May or as agreed. The PhD student will participate in activities provided by the Department of Molecular Biology, the Laboratory for Molecular Infection Medicine Sweden (MIMS), Umeå Centre for Microbial Research (UCMR) and the Nordic EMBL Partnership for Molecular Medicine.

Eligibility
To be admitted for studies at third-cycle level the applicant is required to have completed a second-cycle level degree, or completed course requirements of at least 240 ECTS credits, of which at least 60 ECTS credits are at second-cycle level, or have an equivalent education from abroad or equivalent qualifications.

Qualifications
You should be highly motivated and able to work productively in a team as well as independently. Excellent communication skills for interacting effectively with senior colleagues and peers are required. The successful applicant has experience in standard molecular microbiology techniques including DNA cloning and protein purification. Experience in LC-MS is an advantage.

Application deadline: 2019-04-11

For detail click here


Posted on March 27, 2019

International PhD Program "Biozentrum PhD Fellowships" Summer Call 2019

The aim of the fellowships which are sponsored by the Werner Siemens-Foundation and the University of Basel is to select and promote highly talented graduate students in the area of Life Sciences. The fellowships offer direct access to the PhD program of the Biozentrum, University of Basel, additional financial support financial support, a rotation-based selection of the research group, and support for the attendance of scientific meetings and courses during the PhD.

The Biozentrum encourages talented, ambitious and highly motivated young scientists from all over the world to apply for the prestigious and sought after fellowships offered by the Biozentrum Basel International PhD Program. In contrast to many other PhD student programs that aim at a broad recruitment of many candidates, the “Biozentrum PhD Fellowships” are awarded on a competitive basis to a maximum of 10 successful candidates per open call. Recipients are offered a unique rotation-based selection of a research group of choice and a number of other incentives that foster the scientific excellence and the career prospects of these PhD candidates.

We offer prestigious and independent fellowships thatprovide a unique rotation-based selection of research groups. Research and training in the Biozentrum span scales from atom to organism in the areas of:
COMPUTATIONAL & SYSTEMS BIOLOGY
GROWTH & DEVELOPMENT
INFECTION BIOLOGY
NEUROBIOLOGY
STRUCTURAL BIOLOGY & BIOPHYSICS

Application is open until June 15th, 2019. 

For detail click here


PhD Scholarship - Macadamia Genomics

The Queensland Alliance for Agriculture and Food Innovation (QAAFI) is a research institute of the University of Queensland (UQ) which was established in 2010 and comprises of three research centres – the Centre for Plant Science, the Centre for Animal Science, the Centre for Nutrition and Food Sciences.

The National Tree Genomics Program – Genomics Toolbox is a $4.2M project led by QAAFI researchers at the University of Queensland and funded by Horticulture Innovation Australia with collaborative partners from Australian Industry and Universities. This 5 year Research project began in October 2018 and conducts genomics research across crops: Macadamia, Mango, Almond, Citrus and Avocado. The PhD position is available to conduct genomics research in Macadamia in relation to providing the molecular basis of phenotype and gene expression or genetic variation in the genome.

The successful candidate will have a Master’s degree, 1st Class Honours degree, or equivalent in Plant Molecular Biology, Bioinformatics, Genomics fields relevant to the above described projects. We welcome both domestic and international applicants.

Applications close: 07 Apr 2019 (11:55 PM) E. Australia Standard Time

For detail click here


Posted on March 25, 2019

Doctoral Researcher in Metabolomics

The department Chemical Biology of Prof. Dr. Mark Brönstrup at the Helmholtz Centre for Infection Research (HZI) in Braunschweig, Germany is seeking a Doctoral Researcher (f/m/d) in Metabolomics. The strategic aim of our department is to discover and characterize novel antiinfective substances through screening, synthesis and mode of action studies.

The successful candidate will be responsible for characterizing metabolites that mediate interactions in the gut microbiome. In particular, the project includes the exploration of ion mobility-HR-MS in metabolome studies. The goals of the project are to decipher whether and how infection processes within microbial communities and the associated immune responses are mediated by small molecules.

The candidate should be highly motivated, hold a master degree in biochemistry, microbiology or related disciplines and have high-profile publications in peer-reviewed journals. Solid knowledge in modern bioanalytical methods, in particular in mass spectrometry, metabolomics, microbiology and/or data analysis is important. Additionally, experience in biochemistry and bioinformatics will be considered an advantage.

Closing date: 14.04.2019

For detail click here


Open PhD Position – Translational Immunology

Seasonal influenza is responsible for hundred housands of deaths and hospitalizations each year worldwide. Vaccines are available, but their efficacy is considerably lower compared to vaccines against other infectious agents. Viral mutations ('antigenic drift') are a major cause of poor vaccine efficacy. Such mutations can result from immune selection pressure or during vaccine development. We aim to investigate how repeated exposure to identical antigen likely contribute to immune escape of the pathogen in humans. We study this in a prospective influenza vaccination cohort using immunophenotyping, immune repertoire analysis, and through collaborations systems approaches.

Your position

  • You will harness human vaccination cohorts to study the effect of repetitive vaccination on immune escape and the immune response
  • You will study the cellular and humoral immune response to the vaccine
  • You will design and engineer viruses representing vaccine and circulating variants
  • You will examine the relevance of glycan-binding antibodies in anti-influenza immunity
  • You will investigate viral immune escape with e.g. Luminex assays, hemagglutination inhibition etc...
  • You will establish an in vitro infection assay to study immune selection

Your profile

  • Master's degree in Biology, Biochemistry, Biotechnology or a related field
  • Interest in human immunology and virology
  • Broad experience with molecular biology techniques
  • Knowledge in handling bioinformatics tools
  • Ability to work independently as well as in a small team
  • Fluency in English

For detail click here


Posted on March 22, 2019

PhD student on complex genetics and artificial intelligence

As a bioinformatician (or prospective cardiologist) you want to matter. You really want to make a difference in the lives of people with a cardiovascular condition. Now and in the future. That is why you consciously choose to work as a bioinformatician in the Department of Cardiology of the UMCG, a dynamic department where research and clinical practice are intertwined. We translate problems that we experience in clinical practice into scientific research. We improve patient care with the results of our scientific research. We believe that providing talent room to develop, a solution can ultimately be found for every cardiovascular condition. As a bioinformatician (and / or PhD student), UMCG Cardiology therefore offers you plenty of opportunities to follow your interests and give your talent space.

As a bioinformatician, you join the successful research line in ischemic heart disease and work on big data under the supervision of international experts in this field. The data includes large genetic data sets (including sequencing data) of >500,000 people and very large imaging (CT, MRI) data sets of >30,000 people. You work together as a team with other disciplines (including cardiologists, radiologists, epidemiologists and pharmacologists). The international network of the Department of Cardiology, UMCG allows you to collaborate with researchers from all over the world and international working visits and conferences are a logical derivative of this.

What do we need

  • You have completed an MSc on IT/bioinformatics.
  • You are interested and / or have experience with statistics and deep learning.
  • You are interested and / or have experience with genetic data.
  • You preferably have research experience, but this is not absolutely necessary.
  • You have excellent communication skills.
  • Team spirit, but also being able to work independently are essential.

Apply no later than 05 May 2019

For detail click here


PhD position in ribonomics based on CRISPR technology in plants

This project aims to develop a method to isolate RNA-binding proteins bound to a specific circadian transcript by in vivo UV cross-linking of RNA-protein complexes, RNA pull-down via specific antisense oligonucleotides and identification of bound proteins by mass spectrometry. The project will identify novel RBPs regulating circadian stress-responsive transcripts and shed light on this largely unexplored layer of post-transcriptional gene regulation.

Applications including CV, research interest and contact information of references (single pdf) should please be sent to: Prof. Dr. Dorothee Staiger (dorothee.staiger@uni-bielefeld.de).

For detail click here


Posted on March 20, 2019

PhD student in  Bioinformatics

Erasmus MC stands for a healthy population and excellence in healthcare. By conducting groundbreaking work, we aim to push boundaries through leading the way in research, education and healthcare. We have access to the latest equipment and techniques in a state-of-the-art environment.

The genome is continuously damaged by endogenous metabolic byproducts, which drive genome stability, carcinogenesis and aging. Fortunately, cells possess several DNA repair systems to repair the damage. The importance of DNA damage prevention for aging is substantiated by specific DNA repair deficient mouse models, which cannot repair damage in transcribed DNA strands, that display premature aging and many age-related pathologies, including neurodegeneration and cognitive decline. Importantly, dietary restriction greatly improves health and lifespan of these mice. In the context of the ZonMW Memorabel project “nutritional prevention of dementia”, we have an open position for a PhD student or postdoc bioinformatics / computational biology.

The highly motivated and successful candidate must have a MSc or PhD degree in a relevant discipline (Bioinformatics, Computational Biology, Statistics, Computer Science) and proficient in “R” and/ or other languages such as Python. The candidate should be able to analyze next generation sequencing data with profound understanding of mathematical and statistical approaches. Experience with the basal transcription process, DNA damage responses and/or aging will be considered an advantage. The candidate should be able to independently design, conduct and evaluate research projects, have outstanding theoretical and experimental research skills, is well-organized and result-driven with a strong team spirit. Furthermore, a strong command of (scientific) English in speech and writing is essential.

Application deadline 03-04-2019

For detail click here


PhD position: Next generation mucosal vaccines

ETH Zurich is one of the world’s leading universities specialising in science and technology. It is renowned for its excellent education, its cutting-edge fundamental research and its efforts to put new knowledge and innovations directly into practice. We are looking for an outstanding student with a microbiology, molecular biology, glycobiology or bioinformatics background to join an exciting project developing next generation mucosal vaccines.

Virus-like particles have proved highly effective for vaccination against a broad range of targets. Novel glycoengineering techniques now make it possible to assemble microbial glycans on virus-like particles. Owing to hugely increased production efficiency over classical glycoconjugate vaccines, these are cheap enough to be applied to livestock and can be produced in sufficient quantities for mucosal vaccination. Your first aim will be to study the effect of antibodies induced by these vaccines on pathogen evolution (largely focusing on E. coli). This will include mouse- and pig-infection models, next-generation sequencing, and molecular characterization of bacterial glycans.

A strong background in microbiology, microbial ecology and evolution, synthetic biology and/or bioinformatics will be highly advantageous in this project. Excellent students interested in moving into this field from immunology, biochemistry, biophysics or related disciplines will also be considered.

For detail click here


Posted on March 18, 2019

PhD candidate in computational network biology

As German Research Center for Environmental Health, Helmholtz Zentrum München pursues the goal of developing personalized medical approaches for the prevention and therapy of major common diseases such as diabetes mellitus, allergies and lung diseases. To achieve this, it investigates the interaction of genetics, environmental factors and lifestyle.

The Institute of Network Biology – INET – is a leading institution in protein-interaction network analysis. A deep understanding of principles and specifics of protein interaction network function, and how perturbations by microbes and evolutionary processes result in altered phenotypes, are the key aspects guiding our research agenda. The understanding of molecular networks and their dynamics by natural perturbations will facilitate their targeted modulation for applications in medicine and bio economy. The Institute is based on an interdisciplinary approach that combines experimental high-throughput protein-interaction mapping and mechanistic studies with computational analyses ranging from graph theory and statistics, machine learning, phylogenetic analyses to quantitative modeling.

Your Qualifications

  • A background in bioinformatics, systems or network biology, complex systems or comparable is expected.
  • Candidates should be interested to bio-computational analyze protein interaction networks on a systematical level.
  • Familiarity with biological data bases and scripting languages as well as the command of programming languages (Python, C, C++ or Java) is required.
  • Candidates should be conceptually familiar with high throughput settings and analyzing of high throughput data in a systems biology context.
  • Excellent oral and written communication skills as well as the ability to collaborate effectively with a diverse multidisciplinary and multicultural team are necessary.

For detail click here


PhD Student - Immunology

The Heinrich Pette Institute - Leibniz Institute for Experimental Virology (HPI), is committed to research on the biology of different human viruses and pathogenesis of viral diseases (http://www.hpi-hamburg.de). The HPI offers the opportunity to perform cutting-edge research in a world-class research environment with excellent technical and animal facilities.

We are looking for a highly motivated, team-oriented student with a diploma/master degree (or equivalent), experience in at least one of the necessary disciplines and techniques thereof (molecular biology, immunology or virology). Experience in immunology and/or multiparameter flow cytometry would be welcome.

Our position is to be filled for up to three years in the “Virus Immunology” group (head: Prof. Marcus Altfeld) with the possibility of extension. Payment and social benefits will be in accordance with the regulations of the German TV-AVH (salary agreement for public service employees).

Please send your application by March 31st, 2019.

For detail click here


Posted on March 15, 2019

EMBL International PhD Programme 2019

The EMBL International PhD Programme, originally established in 1983, represents the flagship of EMBL's commitment to first class training and education. Internationality, dedicated mentoring and early independence in research characterise our programme. Considered to be one of the most competitive PhD training schemes to enter, we are committed to providing EMBL PhD students with the best starting platform for a successful career in science.

Research Topics:

Cell Signalling and Differentiation
Cellular Organisation and Dynamics
Evolution
Gene Regulation, Chromatin and Epigenetics
Genetics and Genomics
Metabolism and Metabolomics
Microbiology and Virology
Molecular Medicine and Disease Mechanisms
Neurobiology
Protein and Proteomics
RNA Regulation and Transcriptomics
Tissue and Systems Biology
Bioinformatics and Software Development
Chemistry and Chemical Biology
Computational Modelling
Imaging, Microscopy and Image Analysis
Integrated Structural Biology
Microfluidics
Robotics and Automation

Registration deadline 25 March 2019

For detail click here


PhD studentship : Biological / Biomedical Sciences

An industry-co-funded PhD studentship opportunity, located in the Faculty of Health and Applied Sciences at UWE Bristol, is available with a living stipend and tuition fees at Home/ EU rates.

The project will be focused on the analysis of volatile markers from the mouth of patients with Type 2 diabetes. Diabetes is one of the most common chronic diseases worldwide and it is now an increasing health issue in the developing world. In West Africa (excluding the sub Saharan northern part) 16 million people have been diagnosed with Type 2 diabetes. This part of Africa will see the largest increase in diabetes in the world in the next 20 years.

Essential criteria:

  • A minimum of a good honours degree (minimum of upper second class honours degree) in a relevant scientific discipline (e.g. Biological or Biomedical Sciences with substantial microbiology training.)
  • A recognised English language qualification is required.

The closing date for applications is Tuesday 16 April 2019.

For detail click here


Posted on March 13, 2019

PhD fellowship in Computational Biology at BRIC

Research in the Helin lab is focused on identifying novel mechanisms and genes involved in the development of human cancer. The lab has made several outstanding contributions to the fields of epigenetics, stem cells and cancer biology. Current work is focused on understanding the biological function of proteins involved in regulation of histone and DNA methylation and how they contribute to cancer. Moreover, the group has developed several cancer-relevant mouse and cellular models that are used both for the understanding of the role of specific proteins in cancer and for the identification of potential targets for the development of novel anti-cancer therapies.

Project description 
The main aim of this PhD project is to use genomic signatures to predict the response of targeted treatment of different cancer types. The aim can be divided into three sub-projects:
  1. Develop and apply mutational signature-based classifier to identify mutagenic processes in cancer genomes
  2. Identify genetic alterations associated with mutational signatures and the epigenetic role in the location of the signature
  3. Validate and optimise the classifier on a clinical cohort of cancer patients with genome sequencing data

Key criteria for the assessment of applicants
Applicants must have qualifications corresponding to a master’s degree related to the subject area of the project e.g. skills within the fields of computer science and biology including data analysis, quality control, statistics, programming and biological interpretation of data results.

Application deadline: [17/3 2019], 23.59pm CET

For detail click here


PhD Scholarship in Microbial Communication

Two 3-year PhD scholarships are available to study the microbial communication in electroactive microbiota, starting July 1st 2019 or shortly thereafter. The PhD projects will be supervised by Associate Professor Yifeng Zhang and is part of GENECHAT project funded by the Carlsberg Foundation Distinguished Fellowship Programme. The successful candidate will join a young, highly innovative, collaborative, productive, responsible, international, gender-balanced, and multidisciplinary team, which is a part of the Residual Resource Engineering Section at DTU Environment.

Responsibilities and tasks
The PhD projects aim to EXPLORE the between exoelectrogens and neighboring microbes, UNVEIL the underlying mechanisms, and subsequently use the knowledge to MANIPULATE the microbiome on the electrode/minerals for more efficient electron transfer and, finally, to VALIDATE the knowledge with specific microbial electrochemical applications such as inorganic bioartificial photosynthesis.

Qualifications
Candidates should have a two-year master's degree (120 ECTS points) or a similar degree with an academic level equivalent to a two-year master's degree, in biological sciences, microbiology, biology, or any other relevant field. The ideal candidate should have a strong background in laboratory methods including microbiology, molecular biology, genetic engineering, and in computational methods including bioinformatics and modelling. Background in any of these subjects would be useful, but more important are enthusiasm for microbial evolution and ecology, self-motivation, and should thrive in a highly ambitious research group that aims to establish new research fields.

Please submit your online application no later than 1 May 2019 (local time).

For detail click here


Posted on March 11, 2019

PhD  position in Mathematical Evolutionary Biology

The Max Planck Society strives for gender and diversity equality. We welcome applications from all backgrounds. The Max Planck Society is committed to employing more disabled individuals and especially encourages them to apply. The Max Planck Society seeks to increase the number of women in those areas where they are underrepresented and therefore explicitly encourages women to apply.

Populations that are threatened by environmental change may escape extinction through adaptive evolution ("evolutionary rescue"). The goal of the project is to develop mathematical models to describe the eco-evolutionary dynamics of rapid adaptation and to determine the probability of evolutionary rescue. Depending on the interests of the students, the models can be situated in an ecological context or in a medical context (evolution of drug resistance, see also below).

The ideal student will be one who is interested in applying mathematical modeling to gain insights into biological problems and is enthusiastic about math as well as about biology. The successful student will learn how to set up and analyse theoretical models to describe biological processes and become skilled in using branching process theory as a modeling tool. Applicants should have a background in mathematics, physics, biology, computer science or a related field. Good quantitative skills are essential. Prior experience in mathematical modeling and knowledge of a programming language (C, C++, Java, R, Python...) is an advantage.

Application deadline is April 7, 2019. However, the position will remain open until filled by a qualified candidate.

For detail click here


PhD fellow in Machine Learning (Computational Biology)

The Department of Computer Science (DIKU), Faculty of Science at the University of Copenhagen is offering a 3-year PhD position starting July 1st, or shortly thereafter. The goal of the project is to develop new Machine Learning methods for predicting mutation-induced changes-in-stability in proteins. The PhD project is funded by the Novo Nordisk Foundation.

The research will be conducted in the group of Wouter Boomsma, which works on the development of methods for analyzing molecular structure, ranging from Monte Carlo simulation techniques to deep learning. The group is located within the Machine Learning Section, which provides a strong, international environment for research within Machine Learning, Natural Language Processing and Information Retrieval.

The applicant should either have a background in Machine Learning or in protein modelling/simulation, and is expected to have significant prior experience with programming (preferably Python). Applicants should hold a MSc degree in computer science, bioinformatics, physics, chemistry, statistics or a closely related field, or be in the final stages of acquiring such a degree. Candidates must have good interpersonal and communication skills. The group is international and fluency in spoken and written English is a requirement. As criteria for the assessment of your qualifications emphasis will also be laid on previous publications (if any) and relevant work experience.

The deadline for applications is 31 March 2019, 23:59 GMT +2.

For detail click here


Posted on March 08, 2019

PhD position in Computational Models of Intestinal Glucose Absorption for Diabetes Prediction

We are currently seeking for candidates to carry a PhD thesis on “Computational Models of Intestinal Glucose Absorption for Diabetes Prediction”. This project consists in developing new computational methods for the prediction of glucose intestinal absorption at the physiological and cellular level in order to improve the understanding of diabetes pathology.

Candidates are thus expected to have a strong background in formal methods (e.g. logic, automata theory, semantics of programming languages, concurrency theory, computer algebra…). The initial step of this project is to design a state of the art model of glucose homeostasis at the physiological level. For this reason, we also expect candidates interested in health science and biology ready to read articles in these domains. Note, however, that prior knowledge in biology is not mandatory to apply to this PhD project.

For detail click here


Doctoral (PhD) student position in skin inflammatory diseases research

The Institute of Environmental Medicine (IMM) is a department at Karolinska Institutet and an interdisciplinary research institution within the broad field of environmental medicine. IMM conducts cutting edge research within the areas of environmental and occupational medicine, toxicology, physiology, epidemiology, and biostatistics with the aim to clarify how environmental and lifestyle factors affect our health and which role genes have. IMM also serves as a scientific advisor to public authorities within the area of environmental medicine and IMM scientists participate in national and international expert groups.

The research focus of the advertised post will be on chemical exposures, and the search for biomarkers using omics approaches for the development of new a diagnostic method for differentiation between allergic and irritant contact dermatitis. The research will include investigation of immune responses in vivo and in vitro, using simple and advanced cell systems, cutting edge methods of molecular biology and imaging, as well as bioinformatics. The task also includes preparation of ethics applications, coordination of patient sampling, and sample logistics. The project is funded by FORTE, and will be conducted in collaboration with the University of Lund, Sweden, the University of Helsinki and the Finnish Institute of Occupational Health in Helsinki, Finland, and Heinrich-Heine University in Dusseldorf, Germany.

We are looking for a highly motivated candidate with a master degree in biomedical sciences, toxicology, or a corresponding, relevant area. Experience in laboratory work, including cell assays and methods of molecular biology (RNA isolation, ELISA, immunohistochemistry), excellent use of standard computer programs, basic knowledge of programming (eg R) and data analysis are highly desirable. Excellent skills in written and spoken English, as well as an ability to interact socially and scientifically with other researchers and students, are essential.

Last application date 28.Mar.2019

For detail click here


Posted on March 06, 2019

PhD Scholarship in Biomedical Imaging Technology- bioinformatics and big data

The Centre for Advanced Imaging (CAI), a strategic initiative of The University of Queensland, is a leading imaging research facility in Australia, and one of a handful in the world. It brings together the skills of a critical mass of researchers and state-of-the-art, world- or Australian-first imaging research instruments including NMR, EPR, MRI, PET, CT, optical imaging and an on-site cyclotron and radiochemistry facilities. CAI hosts the largest Node of the National Imaging Facility (NIF) (http://anif.org.au/). CAI conducts research across the spectrum from development of new imaging technologies, analysis of molecular structure, synthesis of MRI and PET biomarkers targeting fundamental biological processes to studies of major diseases affecting a range of organ systems, through to imaging economically significant agricultural animals and plant material, minerals and construction materials.

The Australian Research Council Training Centre for Innovation in Biomedical Imaging Technology, at the University of Queensland, is looking for high calibre enthusiastic postgraduate students who: have studied Engineering, Physics, Computer science degrees or equivalent; are interested in the Biomedical Imaging Technologies and developing new informatics tools for multimodal imaging and genomic data; want to obtain relevant skills and exposure to industry; want to learn about commercialisation; and, have a desire to be involved in academic, clinical and/or industry focused research.

Applications are invited from outstanding and enthusiastic graduates who have an interest, and preferably a background, in Biomedical Imaging Technology. They should have basic understanding of object orientated coding principles and basis knowledge and experience in a programming language: C++, Matlab, Python or equivalent.

Successful students will have the opportunity to:

  • Learn about the trends occurring in diagnostic imaging in the age of “Personalised Medicine”
  • Learn about the use of Artificial Intelligence concepts such as machine learning and big data analytics in real world problems; and,
  • Undertake internships with our industrial partners.

Applications close: 31 Mar 2019 (11:55 PM) E. Australia Standard Time

For detail click here


PhD position in Quantitative Genomics

A PhD opportunity is available at the Institute of Health and Biomedical Innovation, Queensland University Technology to study the quantitative genetics of complex health traits in the Norfolk Island isolate. Specifically, the project will involve statistical analysis of whole genome sequence data to understand the population genetic architecture of this unique founder population in relation to polygenetic traits that underpin complex disease risk.

The successful applicant will learn a variety of methods involved in disease gene mapping with next generation sequencing data sets, such as association testing of common and rare variants and polygenic marker analysis using machine learning techniques. The scholarship is provided via a grant from the Australian Research Council.

Eligibility
You must have: Meet the PhD admission criteria Received first-class honours (H1) or equivalent Ideally you will also have skills in the use of R programming and the Linux operating system (not necessary but preferred) Applicants should have a keen aptitude and interest in computing and/or biostatistics.

For detail click here


Posted on March 04, 2019

PhD fellowship in human population and quantitative genetics

The Department of Biology, Faculty of Science, at University of Copenhagen invites applications for a PhD student position at the Lundbeck Foundation GeoGenetics Centre in the University of Copenhagen, in the research group of Fernando Racimo, starting on May 1st, 2019. The Racimo group focuses on using ancient and present-day genomes to understand patterns of selection and admixture over time, and to develop methods to jointly analyze population and functional genomic data.

The candidate will be able to work with unprecedentedly large ancient genomic datasets from a period spanning the last 10,000 years of human history, in combination with functional datasets and medical biobanks. The focus of the project will be on integrating ancient genomics with population genetic theory and quantitative genetic resources.

The candidate will have freedom to design their project in consultation with the advisor, and the project can range from theoretical methods development to empirical data analysis. Research topics can include: 1) Utilizing trait-association data from metabolic, neurological and anthropometric studies to learn about the evolution of complex traits in ancient genomes from the Paleolithic, Neolithic, Bronze Age and Iron Age; 2) Developing methods to detect genes under positive selection when working with multiple populations related to each other in complex ways; 3) Searching for functional variants that were positively selected in humans over time during major cultural transitions, like the advent of agriculture; 4) Testing among different models of evolution on trait-associated variants over time.

The candidate will have an MSc degree or equivalent, with a background in one or more of the following areas: evolutionary biology, population genetics, computational biology, bioinformatics, genomics, mathematics and/or statistics. The ideal candidate will demonstrate a working proficiency in one or more programming languages commonly used in data science (e.g. experience in Python, R, C/C++, Java or Julia) and have experience in the UNIX operating environment.

The deadline for applications is March 13th 2019, 23:59 GMT +1

For detail click here


ICFO International PhD Fellowship positions(Summer 2019)

ICFO is offering a limited number of PhD positions to well-qualified graduate students, who wish to obtain a doctoral degree in any of the research topics available within the current call at ICFO. Research is carried out at ICFO.

Our PhD-program brings together top-level training and teaching for young scientists, benefiting from the extensive course offerings of local universities and focused instruction by ICFO professors, in a stimulating, international and interdisciplinary environment. PhD-students have the opportunity to take advantage of our network of excellence, consisting in partners of national and international research institutes and universities, as well as industrial partners in the field.

Fellowships will be offered across all ICFO research groups in the following research areas, including:

  • Biophysics & Biomedical Optics
  • Optical Sensing, Optoelectronics & Photovoltaics
  • Nonlinear Optics, Ultrafast Optics & Atto-Physics
  • Nanophotonics, Optomechanics & Nanomechanics
  • Experimental Quantum Optics & Quantum Information
  • Theoretical Nanophotonics, Quantum Optics & Quantum Information

To be eligible for an ICFO PhD position, candidates must:

  • Have an internationally-recognized Master-equivalent degree. The degree must be completed by the start of your prospective PhD at ICFO, at the latest, and must be in a field of science and engineering related to the ICFO research activities. Degrees issued within the European Higher Education Area (EHEA) must have an equivalent to 300 ECTS, out of which a minimum of 60 ECTS must have been obtained in postgraduate studies.
  • Have an excellent academic record, previous research experience and a strong commitment for scientific research.
  • Have a high working knowledge of English.

For detail click here


Posted on March 01, 2019

PhD fellowship in Epidemiology and Biostatistics at Department of Public Health

The POPE group is conducting epidemiologic research focused on how conditions early in life influence fetus, child and adolescent health. The approximately 20 people in the POPE group work with the Danish National Registries, the Danish National Birth Cohort, and contribute to several international birth cohort collaboration efforts.

The aim of this PhD project is to develop algorithms to predict for whom eating disorder symptoms will resolve, persist or progress across adolescence. The primary data source is the Danish National birth Cohort, with approximately 95 000 individuals that have been followed from prenatal life until early adulthood. On these individuals, massive data is available from reports by the mothers and the individuals themselves collected longitudinally, as well as from linkage with the national registries. Symptoms of eating disorders were collected at 11 and 18 years of age, and diagnosis of eating disorders will be retrieved from the National Patient Registry.

The successful applicant for this Ph.D. fellowship will be a statistician with a strong background in both mathematics and statistics, i.e., a candidate degree in for example mathematics or engineering sciences. Accordingly, we require documented skills within both theoretical and applied statistics and additional experience with epidemiological research, as well as and use of registry data. Further, high-level computational statistics will be valued highly.

Application deadline: 18th March 2019, 23.59pm CET

For detail click here


PhD position: Cell-In-Cell: understanding how two different cells can live together in endosymbiosis

The University of Exeter’s College of Life and Environmental Sciences, is inviting applications for a fully-funded PhD studentship to commence in September 2019 or as soon as possible thereafter. For eligible students the studentship will cover UK/EU/International tuition fees plus an annual tax-free stipend of at least £15,009 for 3.5 years full-time. The student would be based in the state of the art and newly constructed interdisciplinary Living Systems Institute which is in the College of Life and Environmental Sciences at the Streatham Campus Exeter.

Previous work within the lab has produced a large range of data and the student will be given the intellectual space and support to develop their own project within this team and subject remit. The PhD project/s can focus on bioinformatic and evolutionary analysis of ‘omics data, the role of the wider microbiome in the endosymbiotic interaction, cell biological approaches for studying the interaction and/or genetic approaches to understand which genes encode endosymbiotic function . The “CELL-in-CELL-“ project has received funding from the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme (grant agreement No 819507).

Applicants for this studentship must have obtained, or be about to obtain, a First or Upper Second Class UK Honours degree, or the equivalent qualifications gained outside the UK, in an appropriate area of science or technology. If English is not your first language you will need to have achieved at least 6.5 in IELTS and no less than 6.0 in any section by the start of the project.

Application deadline: 25th March 2019

For detail click here


Posted on February 27, 2019

PhD student “Integration of multi-omics for a novel therapeutic approach to inflammatory bowel disease”

The Leuven IBD research group headed by Prof. Dr. Séverine Vermeire has an extensive track record in the field of inflammatory bowel diseases. By conducting both translational and clinical research, we want to advance knowledge about the pathogenesis of these diseases, to provide better patient care and ultimately to obtain a cure. The etiology of this multifactorial disorder remains largely unknown, but complex interactions between the immune system, microbial and environmental factors, and host genotype are involved. Our research group focuses on each of these factors and combines advanced technologies (metagenomics, genomics, RNA sequencing, metabolomics, proteomics, etc.) with a deep interest in the integration of complex omics and computational modeling. Our group is now looking for a dynamic and highly motivated student to enforce our multidisciplinary research team, and to start a 4-year PhD project.

Asavailable treatment options for inflammatory bowel disease are rapidlyincreasing, biomarkers predicting response to treatment have to be identifiedin an attempt to achieve individualized medicine. Similar to the oncologyfield, biomarker development will only move forward by applying genomics,proteomics, transcriptomics, metagenomics and/or metabolomics, and integratethese with clinical, endoscopic, histological and radiological findings.

Profile Master in (bio)medical sciences, bioinformatics, computer science, computational biology, (bio)statistics or equivalent Experience in coding, machine learning, biomarker detection is a plus Interest in analyzing and integrating complex omics- and clinical datasets You can work independently and in a team You can work with great precision and you are flexible Ability to understand and translate between wet-lab scientists, clinicians and IT-professionals Excellent English verbal and written communication skills, ideally also Dutch.

You can apply for this job no later than June 01, 2019

For detail click here


PhD Studentship - The molecular mechanisms of piRNA biogenesis

The Cancer Research UK Cambridge Institute (CRUK CI) is a joint venture between the Charity, Cancer Research UK, and the University of Cambridge. The Institute has excellent state-of-the-art facilities and research ranges from basic cancer biology and computational biology through to translational research and clinical application. Graduate students play a pivotal role in the continuing success of our research programmes and gaining a studentship in the Institute is an excellent opportunity to start a research career in an environment committed to training outstanding cancer research scientists of the future.

The project aims at understanding the molecular mechanisms that drive the biogenesis of piRNAs. While a rough framework of piRNA processing has been established, the precise hierarchy of the processing events and the exact role of each factor is not yet fully understood. This aim will be achieved by combining biochemistry, high-throughput approaches (RNA-seq, small RNA-seq, CLIP-seq, proteomics), super-resolution (live) cell imaging and computational approaches by exploiting in vitro cell culture models and fly genetics. Understanding how piRNAs are generated will bring substantial advancements to the field and will be crucial to understand how the piRNA pathway can adapt and evolve to achieve robust transposon control.

The deadline for application submission is 12 April 2019, with interviews expected to take place in mid-May.

For detail click here


Posted on February 25, 2019

PhDs in Computational Biology of Childhood Cancer

DTU Health Tech is seeking several PhDs and full-time postdocs for the Disease Data Intelligence group headed by associate professor Ramneek Gupta, to work in close collaboration with professor Kjeld Schmiegelow’s childhood oncology group and the Department of Clinical Genetics at Rigshospitalet. The collaboration further extends to clinical and research groups in Lund, Sweden, as part of the EU inter-regional cooperation effort iCOPE (Interregional Childhood Oncology Precision medicine Exploration).

The Disease Data Intelligence group at DTU is part of the Section of Bioinformatics at the department that houses seven internationally-diverse research groups in an open collaboratory atmosphere, and continuing synergy with other research groups at DTU. The Section has priority access to a large life-sciences dedicated supercomputer and co-develops the bioinformatics environment on this platform. All PhD studies at the Section are in English, and there is a strong emphasis on internationalisation for Danish PhDs including an expectation to present at international conferences and workshops.

The current recruitment will address, amongst others, the following areas: 

  • The germline-somatic continuum of childhood cancer: impact on tumorigenesis, disease prognosis and treatment outcome and toxicities
  • Clonal heterogeneity and tumour evolution
  • Clinical interpretation of actionable germline and somatic variants
  • Prioritisation of genomic variants of unknown significance
  • Functional landscape of sequence and structural variants
  • Mapping of disease oligoclonality at diagnosis and during therapy
  • Pharmacogenetic alterations, DNA repair pathways and treatment response
  • Machine learning on treatment efficacy and toxicities in groups of patients (tumour expression, tumor mutational signatures, predisposition variants, epigenetic alterations) 
Qualifications
Candidates should be able to exhibit the following personal and professional qualifications:
  • Comfortable at the UNIX command-line and basic data manipulation
  • Programming in R and perl, python or similar
  • Database skills and experience with high-performance computing are an advantage
  • Experience in clinical or disease areas is an advantage, as is experience with handling and interpreting complex data

Please submit your online application no later than 11 March 2019 (local time).

For detail click here


PhD position in integrative analysis of metabolomic and transcriptomic data

The Cluster of Excellence “Balance of the Microverse” of the Friedrich Schiller University Jena, Germany, combines expertise in life, material, optical and computational sciences to elevate microbiome studies from descriptive to hypothesis-driven and functional analyses. Our core mission is to elucidate fundamental principles of the interactions and functions in microbial communities in diverse habitats ranging from oceans and ground water to plant and human hosts. We aim to identify the shared characteristics of disturbed or polluted ecosystems as well as infectious diseases on the microbiome level and develop strategies for their remediation by targeted interventions. Our full spectrum of expertise in the physical and life sciences will be leveraged to address these important issues in natural habitats as well as synthetic arenas in a collaborative manner.

The Cluster of Excellence Balance of the Microverse invites applications for a Doctoral Researcher Position (Ref. No. 15/2019) to conduct research in the group of Prof. Dr. Christoph Steinbeckon the projectIntegrative analysis of metabolomic and transcriptomic data to assess the biosynthetic capacity of microbial communities.

We expect:
•An MSc (or equivalent) in Bioinformatics, Cheminformatics or a topic in the natural sciences (Microbiology, Molecular Biology, Biochemistry or closely related fields) with a strong programming and informatics background. Candidates in the final stages of obtaining their degree are eligible to apply
•Desirable methodological skills: excellent background in metabolomic and/or transcriptomic analyses, experience with bioinformatic tools and data modeling.
•A good understanding of microbial biology or biochemistry.
•Skills in at least one modern programming language, an object oriented language is a plus.
•Desire to learn and work with modern technologies (such as Docker, cloud computing and noSQL databases) and apply them in the life sciences domain.

For detail click here


Posted on February 22, 2019

Doctoral (PhD) student position in oncology

The Department of Biosciences and Nutrition performs research and education in several areas of medical science including bioorganic chemistry, molecular endocrinology, cancer biology, functional genomics, systems biology, epigenetics, structural biochemistry, cellular virology, and nutrition. It offers an excellent international research and working environment, including around 300 scientists, students, administrative and technical personnel. The Department resides in the new biomedical research building Neo, aimed at being a creative and open environment that enables meetings, synergies, and exploration of areas of mutual interest across disciplines.

This KID-funded project is entitled “Estrogen-regulated lncRNAs as mediators of tumor-repressive functions in colon”. Colorectal cancer is the 3rd most common cancer for men and women, but a truly preventive or targeted therapy against this disease does not yet exist. Estrogen is associated with a lower incidence and our goal is to understand the basic mechanistic background of this association. Estrogen signaling is mediated by estrogen receptors which can be activated or inactivated by ligands, and are ideal candidates for therapeutic targeting. The overall objective of this project is to dissect this mechanism and help understand the impact of long non-coding RNAs in colorectal cancer and in estrogen signaling.

Duties and qualifications

  • Performing molecular biology, cell biology, and biochemical assays, including immunohistochemistry, immunofluorescence staining, transfections, chromatin immunoprecipitations, western blotting, qPCR, cell proliferation, migration, invasion, and apoptosis assays
  • Applying omics approaches (RNA-seq, ChIP-seq) and bioinformatics
  • Animal studies
  • Organization of laboratory routines and documentation
  • Analyzing data, and presenting the results
  • Preparation of manuscript drafts and grant applications
  • Attending seminars, courses and conferences

Eligibility requirements for doctoral education
In order to participate in the selection for a doctoral position, you must meet the following general (A) and specific (B) eligibility requirements at latest by the application deadline.

Last application date 13.Mar.2019 11:59 PM CET

Reference number 2-1084/2019

For detail click here


PhD student position in Evolutionary Genomics

Uppsala University is a comprehensive research-intensive university with a strong international standing. Our mission is to pursue top-quality research and education and to interact constructively with society. Our most important assets are all the individuals whose curiosity and dedication make Uppsala University one of Sweden’s most exciting workplaces. Uppsala University has 42,000 students, 7,000 employees and a turnover of SEK 6.7 billion.

The Evolutionary Biology Centre (http://www.ebc.uu.se/?languageId=1) is one of the world’s leading research institutions in evolutionary biology. It is part of Uppsala University, which has been ranked very high among all European Universities in the subject of evolutionary biology. Our lab is part of the Program of Evolutionary Biology that excels in many aspects of genetics and evolution and offers an inspiring international atmosphere. There are ample opportunities for interaction with PhD-students, PostDocs and researchers working on related topics. We are tightly linked to the Science for Life Laboratory (https://www.scilifelab.se/) and have access to advanced laboratory infrastructure, high performance computing resources and bioinformatics support.

Qualifications required: To be eligible for a PhD-student position the applicant must hold a master degree (or equivalent) in biology or a related field. Bioinformatic skills will be necessary to carry out the projects.  Candidates must be able to express themselves fluently in spoken as well as written English.

Qualifications desired: The ideal candidate is highly motivated and enthusiastic about evolutionary biology and has a good understanding of population genetics and evolution theory. Experience with large-scale genetic analysis, bioinformatics, scripting and programming is advantageous. Computational and statistical training is also advantageous.

You are welcome to submit your application no later than March 20, 2019, UFV-PA 2019/635.

For detail click here


Posted on February 20, 2019

Doctoral Researcher in Bioinformatics

The Leibniz Institute for Natural Product Research and Infection Biology – Hans Knöll Institute – (HKI, www.leibniz-hki.de) investigates the pathobiology of human-pathogenic fungi and identifies targets for the development of novel natural product-based antibiotics. The Research Group Systems Biology and Bioinformatics invites talented and highly gifted candidates to apply for a Doctoral Researcher (f/m/d) in Bioinformatics in the domain of next generation sequencing analysis to develop novel therapeutic treatments for human diseases. The position is starting on 1st of August 2019 or soon after for three years.

The Systems Biology & Bioinformatics (SBI) group of Leibniz Institute for Natural Product Research and Infection Biology, Hans Knöll Institute Jena, Germany, is seeking one PhD candidate in the domain of next generation sequencing analysis to develop novel therapeutic treatments for human diseases. SBI is active participant of several national and international collaborative efforts to tackle infectious diseases. The successful candidate is expected to lead bioinformatics projects and develop bioinformatics pipelines for understanding infectious processes by pathogens. The successful candidate is expected to interact closely with wet-lab scientists for discovering new molecular mechanisms of pathogens.

Your profile: A strong interest in conducting collaborative research on the topic outlined above is paramount. Candidates are expected to be interested in working at the boundaries of several research domains.

  • MSc degree in Systems Biology, Computational Biology, Bioinformatics, Biophysics, Computer Science or a related discipline.
  • Knowledge and experience in the analysis of biological high-throughput data.
  • Knowledge in statistical methods in the context of biological systems.
  • Experience with programming (Python, Perl, C++, R).
  • Well-developed collaborative skills.

For detail click here


Interdisciplinary PhD positions in host-microbe biology

Founded in 1614, the University of Groningen enjoys an international reputation as a dynamic and innovative centre of higher education offering high-quality teaching and research. Flexible study programmes and academic career opportunities in a wide variety of disciplines encourage the 31,000 students and researchers alike to develop their own individual talents. As one of the best research universities in Europe, the University of Groningen has joined forces with other top universities and networks worldwide to become a truly global centre of knowledge.

We are looking for two talented and enthusiastic biologists, biochemists, physicists or mathematicians who are interested in applying quantitative and system-level approaches towards understanding host-microbe interactions. The PhD candidates for this project will be working at the Intestinal Microbiology group led by Dr. Jonas Cremer and which is part of the GBB Department of Molecular Immunology and Microbiology. Gut bacteria, their growth and their interactions within the human host are studied via a highly interdisciplinary approach that includes methods for state-of-the-art anaerobic cultivation, omics techniques, and extensive computer simulations.

Qualifications

The ideal candidates are interested in doing both, wet-lab experiments and modelling approaches, share an enthusiasm to investigate biology by numbers, and can provide the following qualifications:

• a MSc degree with specialization in molecular (micro)biology, biochemistry, bioengineering, physics, mathematics, or computer sciences is required
• excellent command of the English language
• ability to work independently and in a team
• experience with simulations/coding or wet-lab experiments is an advantage.

You may apply for this position until 28 February 23:59h / before 1 March 2019 Dutch local time by means of the online application form

Posted on February 18, 2019

35 PhD positions within the Doctoral Programme, TALENT at the Faculty of Science, University of Copenhagen

Biodiversity; biological sciences and bioinformatics; chemical sciences; computer sciences; earth and planetary systems sciences; envirionment, climate and sustainability; food sciences; health and genomics; mathematical sciences, statistics & economics; nano and materials sciences; natural science education; nutrition and sports; particle physics, astro physics and cosmology; plant sciences and biotechnology; quantum sciences and technology; ressource economics and global development.

Department of Biology, Department of Chemistry, Department of Computer Science, Department of Food and Resource Economics, Department of Food Science, Department of Geosciences and Natural Resource Management, Department of Mathematical Sciences, Department of Nutrition, Exercise and Sports, Department of Plant and Environmental Sciences, Department of Science Education and the Niels Bohr Institute. The Doctoral Programme TALENT is offering 35 PhD scholarships in the above-mentioned 16 areas, commencing no later than 1 October 2019. Earliest indicative start date is 1 August 2019.

Formal requirements 
In order to be eligible for the TALENT Doctoral Programme, applicants:

1. Must not have resided or carried out their main activity (work, studies, etc.) in Denmark for more than 12 months in the 3 years immediately prior to TALENT's call deadline: 1 April 2019.
2. Must at the TALENT call deadline (1 April 2019) be in the first four years (full-time equivalent research experience) of their research careers and must not yet have been awarded a doctoral degree.
3. Must hold a relevant MSc degree at the time of applying. However, candidates, who do not hold an MSc degree, are also considered eligible if their credentials and CV equal those achieved on an MSc.

Application deadline: 01-04-2019

For detail click here


PhD student in Integrative Computational Network Biology

The Barcelona Supercomputing Center - Centro Nacional de Supercomputación (BSC-CNS) is the leading supercomputing center in Spain. It houses MareNostrum, one of the most powerful supercomputers in Europe, and is a hosting member of the PRACE European distributed supercomputing infrastructure. The mission of BSC is to research, develop and manage information technologies in order to facilitate scientific progress. BSC combines HPC service provision and R&D into both computer and computational science (life, earth and engineering sciences) under one roof, and currently has over 500 staff from 44 countries.

The successful candidates will complete a PhD, which will address multiple topics: developing and applying sophisticated models and algorithms carefully tuned to extract relevant biological and medical knowledge from systems-level real-world molecular and medical data, including whole genome sequences, epigenetic data, protein-protein interaction networks, signaling networks, metabolic networks, transcriptional regulation networks, gene and disease ontologies, drug similarity networks, drug-target interactions, drug-drug interactions, patient records, lifestyle data, electronic health records etc.; the aim is to mine these inter-linked heterogeneous networked data for new biological and medical insight that would lead to improving diagnostics, discovering new biomarkers, improving patient stratification and treatment, personalizing treatment and facilitate rational drug development.

Key Duties
  • Complete a PhD in computational biology
  • Collaborate with various research groups across Europe, USA, Canada and elsewhere
Requirements
  • Education
    • MSc in Computer Science, Mathematics, Physics, Bioinformatics, or a related field;
      BSc in Computer Science is preferred.
  • Essential Knowledge and Professional Experience
    • Fluency in spoken and written English

For detail click here


Posted on February 15, 2019

PhD Student in Dermato-Oncology and Bioinformatics

The German Cancer Research Center is the largest biomedical research institution in Germany. With approximately 3,000 employees, we operate an extensive scientific program in the field of cancer research. The National Center of Tumor Diseases (NCT) Dresden is a joint institution of the German Cancer Research Center, the University Hospital Carl Gustav Carus Dresden, the Faculty of Medicine at TU Dresden, and the Helmholtz-Zentrum Dresden-Rossendorf (HZDR). The NCT with sites in Heidelberg and Dresden is the leading oncological center in Germany and shall be expanded to an international center of excellence regarding point-of-care and individualized cancer medicine. The German Cancer Research Center is seeking for the partner site Dresden of the National Center of Tumor Diseases a PhD Student in Dermato-Oncology and Bioinformatics.

Melanoma brain metastases remain the leading cause of skin cancer-related deaths, despite new effective therapy options for patients with metastatic melanoma. This PhD project aims at identifying novel proteins and signaling pathways that are associated with therapy resistance of melanoma brain metastases by comparing the epigenetic and transcriptomic landscapes of matched brain- and non-brain metastases from the same patients. The PhD student will perform a personalized bioinformatics analysis of already acquired methylome and transcriptome data of the individual matched pairs to derive patient-specific gene and pathway signatures associated with therapy resistance. Based on this, the PhD student will validate candidate genes from the bioinformatics analyses by immunohistochemistry and functional in vitro assays.

Requirements:

  • Strong interest in interdisciplinary clinical and translational oncology research
  • Graduation in molecular biology, biochemistry, biotechnology, bioinformatics or related fields (Master of Science or equivalent)
  • First experiences in the application of cell and molecular biological techniques and bioinformatics data analysis
  • R programming skills
  • Ability to work independently, as part of a team and in collaboration with others in an international and interdisciplinary environment
  • English communication and writing skills are required
  • German speaking and writing skills are of advantage

Application Deadline: 15.03.2019

For detail click here


Doctoral (PhD) student position in Biostatistics

The Department of Medical Epidemiology and Biostatistics (MEB) is among the largest departments of epidemiology in Europe with special focus on increasing our knowledge of the aetiology of different diseases. Our department consists of researchers, doctoral students, biostatisticians, data collectors and database administrators as well as administrative personnel, in total some 250 staff. The department is situated at campus Solna.

The doctoral education project and the duties of the student Applicants are invited for a PhD research training position to work on the development and application of statistical models in population-based cancer studies, together with Dr. Therese Andersson and Prof. Paul Lambert.The project will include multistate and/or relative survival/excess mortality models applied to population disease registers. For new methods, software will be developed to help the transferal of methods into practice. There is flexibility in the exact topics of the PhD depending on the successful applicant’s background and interests, but it is expected that it will contain a mixture of both methodological and applied studies.

General entry requirements
A person meets the general entry requirements for doctoral/third-cycle/PhD education (according to Higher Education Ordinance Chapt 7, section 39) if he/she:

 

  • has been awarded advanced/second-cycle/master qualification (i.e. master degree) or
  • has satisfied the requirements for courses comprising at least 240 credits of which at least 60 credits were awarded in the second-cycle/master level, or
  • has acquired substantially equivalent knowledge in some other way in Sweden or abroad.

 

Last application date 22.Mar.2019

For detail click here


Posted on February 13, 2019

Two doctoral Students: Bioinformatics and Functional Genomics

The German Cancer Research Center is the largest biomedical research institution in Germany. With approximately 3,000 employees, we operate an extensive scientific program in the field of cancer research.

We are seeking two exceptionally talented and highly motivated Doctoral Students in the Division of Applied Functional Genomics (Prof. Dr. Claudia Scholl) and in the Regulation of Cellular Differentiation Research Group (PD Dr. Daniel Lipka) in the Division of Cancer Epigenetics for a joint project that focuses on the elucidation of mutant KRAS-induced epigenetic changes and the associated vulnerabilities.

We are international, friendly and enthusiastic teams that offer intensive support and mentoring. Technologies in our laboratories include functional genomics (RNAi, CRISPR/Cas9), structural genomics (single-cell RNA sequencing, single-cell DNA methylation, histone modifications, chromatin configuration), bioinformatics and diverse molecular/cell biological and biochemical approaches. Furthermore, we are closely connected to clinical aspects of cancer patient care, for example via the MASTER cancer genome sequencing program of the National Center for Tumor Diseases (NCT) and the German Cancer Consortium (DKTK).

We offer:

  • Interesting, versatile workplace
  • International, attractive working environment
  • Campus with modern state-of-the-art infrastructure
  • Access to international research networks
  • Doctoral student payment including social benefits
  • Flexible working hours
  • Comprehensive training and mentoring program through the Helmholtz International Graduate School

Application Deadline: 01.03.2019

For detail click here


Doctoral candidate (PhD student) in Cancer Metabolism and Microbiome Research

The University of Luxembourg is a multilingual, international research University. Luxembourg is a dynamic, multicultural country in the heart of Europe with a strong research and development base supported by important organisational resources. The Luxembourg Centre for Systems Biomedicine (LCSB) at the University of Luxembourg offers state-of-the-art facilities and an excellent training environment for early-stage researchers, in particular in the biomedical sciences. The Enzymology & Metabolism and Environmental Cheminformatics Research Groups at the LCSB are looking to hire a PhD student as part of the MICROH DTU, an interdisciplinary doctoral training unit which aims to study interactions within and between microbiomes in relation to two major healthcare challenges of our time, i.e. the spread of antimicrobial resistance genes and the increasing prevalence of chronic diseases.

The project entitled ‘Untargeted Approaches to Identify Metabolites Involved in Colon Cancer Development and Progression’ involves the development of untargeted metabolomics analysis pipelines to identify metabolites whose levels differ significantly e.g. between control and tumour samples from colorectal cancer patients or between healthy control and patient plasma samples. Elucidation of the organismal origin of these metabolites (microbiome- or human-derived) will be assisted by metabolic modelling.

Your Profile

  • Master degree in Chemistry, Biochemistry, Molecular Biology, Biotechnology or a related discipline
  • Strong background in metabolic biochemistry and analytical chemistry, as well as solid notions in bio- /cheminformatics and biostatistics
  • Previous hands-on experience with chromatography and mass spectrometry techniques
  • Experience with metabolic modelling will be considered an advantage
  • Excellent English writing and speaking skills will be essential

Please apply ONLINE until March 1st, 2019 (or until filled).

For detail click here


Posted on February 11, 2019

PhD student in computational biology

Uppsala University is a comprehensive research-intensive university with a strong international standing. Our mission is to pursue top-quality research and education and to interact constructively with society. Our most important assets are all the individuals whose curiosity and dedication make Uppsala University one of Sweden’s most exciting workplaces. Uppsala University has 42,000 students, 7,000 employees and a turnover of SEK 6.7 billion.

The Department of Cell and Molecular Biology is one of the most international, broad and distinguished molecular bioscience departments in Europe.The department comprises six research programs with about 130 employees. This PhD position will be in Professor Johan Åqvist’s research group, in the program for Computational Biology and Bioinformatics. The programbrings together research and education in biomolecular computing and bioinformatics,there are about 40 employees, including 15 PhD students.

The applicant should have a university degree in chemistry, biochemistry or physics. The applicant should have a solid background in theoretical chemistry and structural biology, as well as experience from computational calculations. Team work ability is considered very important and you must be able to teach in either Swedish or English. Admission decisions will be based on an assessment of the applicant's ability to successfully complete the doctoral studies.

Please submit your application by March 4th 2019, UFV-PA 2019/476.

Reference number UFV-PA 2019/476

For detail click here


PhD position (bioinformatician)

We are one of the youngest universities in Germany and think in terms of possibilities, not limitations. In the heart of the Ruhrregion, we develop ideas of the future at our 11 faculties. We are strong in research and teaching, live diversity, support potential and are highly committed to an educational equality that has earned this name.

The University Hospital Essen offers first class medical services in the Ruhr metropolis. Every year, 225.000 patients are treated in 26 clinics, 23 institutes and specialized centers. The over 6.000 employees offer medical care with state-of-the art diagnostics and therapies, which meet highest international standards. Patient care is connectedwith basic and translational research at an international competitive level.

We are looking for enthusiastic candidates with a strong Master’sdegree(or equivalent)in the field of: Medical Sciences, Cell Biology, Molecular Biology, Immunology, Biochemistry, Biophysics, Bioinformatics, or equivalent disciplines.Candidates should be able to work independently and have a strong interest in the above-mentioned research fields as well as high motivation and commitment for active participation in the interdisciplinary program of the CRU. Candidates are selected on the basis of excellent performance in their studies and their motivation.Candidates should be fluent in spoken and written English; knowledge of German is not a requirement.

We are looking forward to your application (incl. cover letter, CV, Bachelor’s, Master’s, references, list of publications, if available). As an option, applicants for PhD student positions can indicate up to three project preferencesor if they would like to be considered for any of the available positions.

For detail click here


Posted on February 08, 2019

Bloomsbury PhD Studentship based at RVC: “Omics” based characterisation of host genetics and gut microbiome

Pathogenic microbes limit economic production of poultry, compromise animal welfare and pose a risk to human health. Vaccines are available for some pathogens but are expensive, with limited availability in many countries. A complementary strategy to control disease is to enhance inherent resistance traits of chickens by selective breeding strategies1,3,4.

Enteric-microbiome composition varies widely between individuals and is associated with differences in health and productivity. Recently we discovered that gut-microbiome composition is a heritable complex-trait in chickens2,3, and we identified SNP-markers associated with this trait2,3. These preliminary results support the potential of selective breeding to promote protective gut microbiota and reduce dependence on antibiotic-mediated pathogen control.

Requirements

Essential: 

  • Good first degree in biomedical or a related science.
  • Excellent written English.
  • Excellent organisational skills.
  • Excellent oral and written communication skills.
  • Excellent interpersonal skills, and able to work as part of team.

Desirable:

  • Prior research experience
  • Experience with R and Linux
  • Programming experience
  • Research experience working in a molecular biology, microbiology or genetics lab.
  • Understanding of the poultry industry

APPLICATION DEADLINE 10/02/2019

For detail click here


Interdisciplinary PhD positions in host-microbe biology

Founded in 1614, the University of Groningen enjoys an international reputation as a dynamic and innovative centre of higher education offering high-quality teaching and research. Flexible study programmes and academic career opportunities in a wide variety of disciplines encourage the 31,000 students and researchers alike to develop their own individual talents. As one of the best research universities in Europe, the University of Groningen has joined forces with other top universities and networks worldwide to become a truly global centre of knowledge.

We are looking for two talented and enthusiastic biologists, biochemists, physicists or mathematicians who are interested in applying quantitative and system-level approaches towards understanding host-microbe interactions. The PhD candidates for this project will be working at the Intestinal Microbiology group led by Dr. Jonas Cremer and which is part of the GBB Department of Molecular Immunology and Microbiology. Gut bacteria, their growth and their interactions within the human host are studied via a highly interdisciplinary approach that includes methods for state-of-the-art anaerobic cultivation, omics techniques, and extensive computer simulations.

Qualifications

The ideal candidates are interested in doing both, wet-lab experiments and modelling approaches, share an enthusiasm to investigate biology by numbers, and can provide the following qualifications:
• a MSc degree with specialization in molecular (micro)biology, biochemistry, bioengineering, physics, mathematics, or computer sciences is required
• excellent command of the English language
• ability to work independently and in a team
• experience with simulations/coding or wet-lab experiments is an advantage.

Posted on February 06, 2019

PhD student:  non-coding RNAs in cancer

A position is available for a highly motivated PhD student interested in doing research on circular RNAs in the context of cancer. The candidate will join an international and multidisciplinary team consisting of both bioinformatics and wet-lab experts. The group has a strong research track record on cancer genomics and transcriptomics with a specific interest in the role of non-coding RNAs in cancer as biomarkers or therapeutic targets. Circular RNAs form a fascinating novel class of non-coding RNA, with only a few of them functionally characterized or studied in detail. As circRNAs are stable and abundantly circulating in human blood, they are especially interesting for the discovery of novel cancer biomarkers. The goal of this project is to obtain a set of validated circRNA biomarkers for non-invasive cancer therapy response monitoring and preclinical evidence of novel therapeutic targets.

Profile of the candidate

  • Master’s degree in (Biomedical) Engineering, Bioinformatics, Pharmaceutical Sciences, (Bio)Medical sciences, or equivalent
  • Highly motivated, eager to learn and team-oriented
  • Excellent oral and written proficiency in English
  • You have a specific interest in and motivation for cancer research
  • Affinity to bioinformatics is recommended

Last application date Mar 31, 2019 23:59

For detail click here


PhD Studentship in Developmental Neurobiology

A 3-year PhD Studentship is available within the Developmental Biology of Birth Defects Section, UCL GOS Institute ofChild Health under the supervision of Professor Andrew Copp and Professor Nick Greene. Developmental neurobiology: Why do neural tube defects affect the brain more commonly in females than males? Neuraltube defects (NTDs; e.g. anencephaly, spina bifida) are severe birth defects resulting from failure of embryonic neural tube closure. This PhD investigates why anencephaly (open brain) is 1.5-2 times more commonin females than males, whereas spina bifida (open spine) has an equal sex ratio. Mice with NTDs also show a female excess in anencephaly. Female cells inactivate one of their X chromosomes early in development,and this may limit the availability of methyl groups for control of gene expression during neurulation, possibly representing the basis of the increased anencephaly risk in females.

The project would be suitable for a student with a BSc in Developmental Biology, Genetics or a similar discipline. Applicants should have or expect to receive a first class or upper second class honours degree andshould be ordinarily resident in the UK or EU. Knowledge and laboratoryexperience of research in developmental biology would be an advantage. The student will receive a stipend of £17,280 per annum as well as the cost of tuition fees at the UK/EU rate. Any additional overseas’ studentfees must be paid by the student. The studentship is funded by the Bo Hjelt Spina Bifida Foundation.

To apply, please send a current CV including the contact details of two professional referees, and a covering letter explaining your reasons forapplying for this studentship, and giving details of any relevant experience. The application should be sent to Louise Loughlin, ProgrammeManager for Developmental Biology & Cancer (ich.dbc.admin@ucl.ac.uk). Enquiries regarding the PhD can be made direct to Professor Andrew Copp (a.copp@ucl.ac.uk).

Closing Date 15 Feb 2019

For detail click here


Posted on February 04, 2019

PhD position: “Data science for functional genomics in infection biology”

The research group “Integrative Informatics for Infection Biology” (IIIB) of Dr. Lars Barquist at the Helmholtz Institute for RNA-based Infection Research (HIRI) in Würzburg (Germany) is offering a PhD position: “Data science for functional genomics in infection biology”.

The successful applicant will work in the dynamic and international research environment of the HIRI in Würzburg, which is part of the Helmholtz Centre for Infection Research in Braunschweig. The selected applicant will further be embedded within the highly successful structured doctoral training program of the Graduate School of Life Sciences (GSLS) Würzburg.

Qualifications:

  • Master’s Degree/Diploma in computer science, bioinformatics, statistics, physics, or a related field
  • Experience with at least one mathematical or statistical programming language (e.g. R)
  • Equivalent of advanced undergraduate knowledge of probability and statistics
  • Strong written and spoken English language communication skills

Applications accepted until 17.02.2019

For detail click here


PhD position in Bioinformatics and Genomics

KU Leuven and the Joint Research Centre (JRC) of the European Commission are inviting applications for PhD positions through the Collaborative Doctoral Partnership (CDP) scheme. The CDP scheme intends to enhance the science-policy link through strategic collaborations with higher education institutions characterized by research excellence and international reputation, in order to: - Train a new generation of doctoral graduates in science and technology with a focus on the science-policy interface, able to understand the research needs at different stages of the policy cycle, capable of providing scientific support to policy and of using transferable skills in science communication and knowledge management.

Next Generation Sequencing (NGS) technologies have become an indispensable tool in diagnostic laboratories. First, NGS panels have taken over Sanger sequencing in order to sequence at once all genes linked to a condition and improve diagnostic efficiency, while reducing time to diagnosis. However, targeted resequencing misses a significant proportion of causative genetic variants.  Whole Genome Sequencing (WGS) is becoming affordable and is currently being implemented in a diagnostic setting.  WGS will homogenize the wet lab workflow, offer a single test for all conditions, and ultimately decrease cost and time to diagnosis. However, several challenges remain to implement and routinize clinical whole genome sequencing.

Profile

  • You have (or are near completion of) a Master in Bioinformatics, Computer Science, and/or genetics (or a related field).
  • You have a motivated interest in research in computational biology.
  • You work proactively and independently and have good communication skills.
  • You have a very good knowledge of English, both spoken and written.
  • You are highly motivated, ambitious and result-oriented.

For detail click here


Posted on February 01, 2019

Full-time PhD Position in Biotech Data Science: Ghent University Global Campus, Korea

Ghent University Global Campus Ghent University Global Campus (GUGC) is an integrated campus of Ghent University, Belgium, and the first European university to be part of the Incheon Global Campus (IGC) in Incheon, South Korea. Ghent University Global Campus currently offers Bachelor of Science programs in Molecular Biotechnology, Environmental Technology, and Food Technology. Ghent University is one of the top 100 universities in the world (ARWU 62nd), and in the Life Sciences subjects taught at GUGC, Ghent University ranks even higher.

Job Description

  • Assist his/her supervisors in teaching undergraduate courses at Ghent University Global Campus, Korea (statistics, bioinformatics, and/or mathematics).
  • Conduct (applied) research in the area of machine learning, with a particular focus on applications in plant biotechnology and plant phenotyping, (for example, but not limited to) furthering existing research lines with regards to 3D modeling of rice plants in a greenhouse setting(e.g., plant growth analysis, plant modeling, …).
  • Assist his/her supervisors with tasks in ongoing and future R&D projects.

Profile of the Candidate

  • Hold, or expect to hold, by September 2019, an MSc degree in one of the following disciplines: statistics, (applied) mathematics, computer science, or electrical engineering. Exceptional candidates from other science/engineering backgrounds will also be considered.
  • Have a strong statistical background, a good knowledge of mathematics, and a high level of comfort with computer programming (e.g., C/C++ and/or Python).
  • Be highly motivated to conduct (applied) research in the area of machine learning.
  • Experience with machine learning/computer vision tools (e.g., TensorFlow, PyTorch, OpenCV) is a plus.
  • Experience with R is a plus.
  • Have an excellent academic track record.
  • Have an excellent command of English (a minimum score of 80 on the TOEFL iBT test), both written and orally.

Last application date Mar 31, 2019 23:59

For detail click here


Positions for PhD students: Modelling Chromosome Conformation and Gene Regulation

Positions for PhD students and postdocs funded by an ERC Starting Grant are available in the group of Luca Giorgetti at the Friedrich Miescher Institute for Biomedical Research (FMI) in Basel. Our lab studies the interplay between genome architecture and gene expression in mammalian cells using experimental methods from molecular biology, imaging and genomics as well as physical modelling.

In mammalian cells, transcriptional control depends on distal regulatory DNA sequences such as enhancers, which can be located at large genomic distances from their target genes. Enhancers are thought to activate transcription from promoters by associating with them in the three-dimensional space of the cell nucleus. However, the principles that link enhancer-promoter interactions to transcription are unknown. How often does an enhancer contact its target promoter during a cell cycle, and how long do their encounters last? In how many cells in a population do enhancer-promoter interactions occur? Are they actually necessary for transcriptional activation, and by which mechanisms they translated into accurate gene expression patterns? To address these questions, the successful candidates will apply methods from polymer physics and statistical mechanics to describe the three-dimensional folding and dynamics of chromosomes. They will also develop new computational and bioinformatic methods to analyse quantitative datasets obtained in our lab, including Hi-C as well as live-cell imaging of RNA and DNA.

We are looking for highly motivated, intellectually curious individuals with a proven track record in biophysics, computational or soft-matter physics. Previous experience with analysis of biological datasets and/or bioinformatics will be considered a plus. A competitive salary and collaboration/training with the cutting-edge FMI Computational Biology, Functional Genomics and Advanced Imaging facilities will be provided.

Advertisement no. 44123

For detail click here


Posted on January 30, 2019

PhD candidate in Computational Proteomics and Applied Machine Learning

The Van't Hoff Institute for Molecular Sciences (HIMS) is one of eight institutes of the University of Amsterdam’s Faculty of Science. HIMS performs internationally recognized chemistry and molecular research, curiosity driven as well as application driven. This is done in close cooperation with the chemical, flavour & food, medical and high-tech industries. Research is organised into four themes: Sustainable Chemistry, Analytical Chemistry, Computational Chemistry and Molecular Photonics.

Renal transplantation is the preferred treatment for end-stage kidney disease worldwide, which unfortunately requires life-long medication to suppress the development of rejection. These medicaments have serious side-effects and in some patients they are less effective at treating rejection than anticipated. The cornerstone of current transplant diagnostics is biopsy. Biopsies taken from the transplant are analyzed by a pathologist, who is a medical specialist trained at pattern recognition. Over the past years, new methods to aid pathologists at better performing these difficult classification tasks have been emerging, of which the most important is the use of machine learning algorithms for pattern recognition.

Requirements

What do we require of you?

  • A master’s or equivalent degree in a relevant field (Life Sciences, Systems Biology, Computational Biology, Artificial Intelligence);
  • working knowledge on relevant programming languages (Python, R, Bash, etc.);
  • affinity with translational research, analytical validation and complex systems modelling;
  • ability to work both independently and as a team member;
  • good communication skills in English.

Experience with mass spectrometry and proteomics is preferred.

Vacancy number 19-042

Closing date 1 March 2019

For detail click here


PhD student in computational genomics

The European Research Institute for the Biology of Aging (ERIBA) is a research institute embedded with the University Medical Centre Groningen (UMCG). The mission of ERIBA is to better understand the molecular mechanisms that result in age-related decline and age-related diseases. We aim to develop novel strategies to prevent or combat age-related diseases and to provide evidence-based recommendations for healthy ageing. Our research teams are working with different model systems and technology platforms and share their knowledge and expertise to accelerate discoveries. The ERIBA is part of the central UMCG campus in the vibrant university city of Groningen in the north of the Netherlands.

We are looking for a student to join our project on studying missing and structurally polymorphic segments in human genomes. Despite the fact that completion of human genome project that was announced over 15 years ago, our knowledge of human genomes is still rather incomplete. In total, large and complex changes in our genomes affect even more DNA letters (bases) than single-nucleotide differences. The most challenging part that is typically missing from the resultant list of DNA variants is large insertions that are not part of reference human genome.

What do we need:

The ideal candidate has a MSc in biology, bioinformatics, computer science or a related field who:

  • has solid background in genetics and genomics
  • has experience in programming and data analysis
  • pro-active, can do, collaborative, open attitude
  • communicates easily in English speech and scientific writing (with good publication track record)

You can apply until 17 February 2019.

For detail click here


Posted on January 28, 2019

PhD scholarship in Machine Learning for Precision Oncology

The Cancer Research Center of Marseille (CRCM) is the basic science and translational research unit of the IPC (http://crcm.marseille.inserm.fr/en/the-care-center/). Also affiliated to INSERM, CNRS and Aix-Marseille University, the 250 researchers working at the CRCM form a strongly multi-disciplinary research environment characterized by frequent and close collaborations with IPC clinicians. IPC is a member of the UNICANCER network (http://www.unicancer.fr/en/unicancer).

This project will address the question of how to leverage clinical data to improve our ability to predict which cancer patients will respond to a drug treatment. The CONSORE project within IPC has completed the structuration of electronic health records from clinical practice. As a result, we now count with a large volume of structured data from the IPC (currently 258,168 patient records). The successful candidate will investigate and implement predictive models exploiting these data resources. This includes the application of suitable machine learning techniques to reduce the dimensionality of data in building these in silico models.

Skills/Qualifications

Essential

  • An excellent first or master degree with a major focus on computational analysis of experimental data, preferably in an area directly relevant to the project.
  • Skilled in the implementation of R or Python scripts for scientific data analysis.
  • Comfortable working in linux environments.
  • Ability to communicate effectively in English, both orally and in writing.

Desirable

  • Master project and/or internship in the application of machine learning to solve real-world problems in the context of biomedical research.
  • Prior use of computational tools and resources based on pharmaco-omic data.
  • Background in cancer biology and/or drug discovery.

For detail click here


PhD Students position in Biology/ Computer science/ Computational Biology

The Turing Centre for Living Systems (CENTURI) wishes to attract talented PhD students to the Luminy campus (Marseille, France) and will fund up to 12 PhD fellowships to start in 2019, for three years. PhD students will work in an interdisciplinary life science environment, and have backgrounds in any of the following fields: cell or developmental biology, immunology, neurobiology, biophysics, theoretical physics, computer science, bioinformatics, applied mathematics, engineering. PhD projects must involve at least two research groups from different disciplines, to foster collaborations and interdisciplinarity.

Expected profile – selection criteria

Candidates must have, or expect to obtain a Master’s degree in biology, computer science, computational biology, mathematics, physics or engineering. Candidates will be evaluated on the following criteria:

-  Academic achievements

-  Past research experience (internships)

-  Ability to work on a collaborative research project

-  Ability to work in a multidisciplinary research environment

-  Enthusiasm and communication skills

Deadline for application: February 15, 2019

For detail click here


Posted on January 25, 2019

iGRAD-Plant - a PhD/graduate program for plant science

The International Graduate School for Plant Science is offering an international PhD program with excellent research possibilities for young scientists. iGRAD-Plant is a joint program with the undefinedResearch Center Jülich and the undefinedGenetics program of the Michigan State University, East Lansing, USA. In order to achieve international research experience all PhD students in the iGRAD-Plant program perform a 6 to 9 month research stay at the Michigan State University, one of the leading universities of plant science in the USA. Research areas and training are covered in:

  • Molecular Plant Sciences
  • Genetics
  • Microbiology
  • Synthetic Biology
  • Quantitative Biology
  • Computational Biology

Application Deadline: February 25, 2019

For detail click here


PhD position: Bioinformatics

The Leibniz Institute for Food Systems Biology at the Technical University of Munich (Leibniz LSB@TUM) is a research institution of the Leibniz Association that combines methods of biomolecular basic research with analysis methods of bioinformatics and analytical high-performance technologies to investigate the complex interplay between the human organism and food ingredients.

Your area of responsibility includes    

  • modeling tasks dealing with taste and olfactory receptors, including homology modeling, docking, explicit solvent/membrane Molecular Dynamics simulations, pharmacophore modeling and virtual high-throughput screening
  • taking on organizational tasks

Requirements       

  • The ideal applicant has a degree in bioinformatics, biochemistry, chemistry, food chemistry, life science (state examination, diploma, master\'s degree) or comparable qualification, a sound basic knowledge of computational modeling, as well as data analysis and solid English-language skills.
  • Familiarity with the Linux environment, scripting and programming skills are highly welcome.

For detail click here


Posted on January 23, 2019

PhD position: Decoding cellular heterogeneity

We are a young and dynamic lab that is part of Belgium’s highest-ranked university, KU Leuven. It is a leading European research university, which ranks first in Europe in terms of innovation. This PhD position will be well embedded in local expertise on single cell analyses, as we are part of the SymBioSys network aiming to advance computational methods in single cell analyses, and of the Leuven Cell Center, which joins research capabilities of several labs having a major focus on applications of single cell omics technologies. We share campus with Belgium’s biggest hospital, and have ongoing collaborations with clinicians for patient sample procurement to maximize potential clinical impact. We perform state-of-the-art research in epigenetics, and aim for a functional rather than correlative understanding of the role of epigenetics in biology and disease.

The Laboratory for Functional Epigenetics is looking for a PhD candidate to join our team to investigate the role of the epigenome in generating transcriptional heterogeneity. Cellular heterogeneity is key to multiple aspects of normal development, physiology and to diseases such as cancer. However, the biological control of cellular variability and heterogeneity has remained vastly underexplored, in part because heterogeneity is often obscured in bulk cell omics analyses. The advent of single cell omics technologies however opens up exciting new opportunities to study heterogeneity at the cellular level, a fundamental unit of biology.

Profile

  • Applicants should hold a Master degree in bioinformatics, mathematics, physics, engineering or a biological or biomedical degree with additional training in bioinformatics.
  • We are explicitly looking for innovative, creative personalities with ambition and a hands-on, can-do attitude.
  • Programming/data analysis experience is required (preferably R).
  • Knowledge of statistics, epigenetics and/or NGS data analysis is a strong plus.
  • A proven track record of interest in (epi)genetics or biomedicine is a plus
  • Motivated students of all nationalities with a strong commitment to basic and/or clinical research are invited to apply.

For detail click here


PhD for Data Analysis in Single Cell Genomics

As German Research Center for Environmental Health, Helmholtz Zentrum München pursues the goal of developing personalized medical approaches for the prevention and therapy of major common diseases such as diabetes mellitus, allergies and lung diseases. To achieve this, it investigates the interaction of genetics, environmental factors and lifestyle.

Single cell genomics is revolutionizing biology and medicine, combining the advantages of bulk sequencing techniques and microscopic analyses of single cells. Rapid technological advances now allow the profiling of genomes, transcriptomes and epigenomes at an unprecedented level of resolution. In order to fully exploit these techniques, it is necessary to constantly develop and adapt computational methods of analysis. To that end, the Institute of Diabetes Research together with the Institute of Computational Biology are looking for a PhD candidate aiming to develop computational methods while closely collaborating with wet-lab partners.

Your qualifications

  • M.Sc. degree in bioinformatics, systems biology, computer science, mathematics, physics or equivalent
  • Background in statistical data analysis, ideally for RNAseq data
  • Strong interest in biological applications
  • Passion for computers, science, big data, machine learing and scientific work               
  • Proficient in written and spoken English
  • Team player being comfortable in interacting with colleagues in an interdisciplinary setting

For detail click here


Posted on January 21, 2019

PHD POSITION IN BIOINFORMATICS

We seek a new colleague who will work on a collaborative PhD project between the Neurochemistry group at the Alzheimer Center Amsterdam UMC-locations VUmc and Bioinformatics at the Vrije Universiteit Amsterdam. The aim is to develop novel approaches in biomarker development for dementias. Crucial is here to develop models to rationalise the prediction how biomarkers, in a specific medium, will be able to bind specific antibodies for detection. Therefore, bioinformatics and structural bioinformatics will play an important role in this PhD project.

Your duties

  • Develop a database for a) the epitope discovery process b) antibody design and c) assay development.
  • Use machine learning algorithms to predict epitope-antibody (protein-protein) affinity under differential conditions
  • Generate an adaptive workflow for biomarker development, including the prediction processes
  • Supervise computer practicals for MSc students (approx. 5%)
Functie-eisen
  • A MSc degree in Bioinformatics or MSc in Life Sciences with specialization in Bioinformatics
  • Strong interest in biomedical research
  • Experience in writing extensive R or python methods and workflows
  • A mindset of a practical problem solver combined with determination to solve practical problems
  • Good communication skills
  • Good skills in writing scientific reports

For detail click here


PhD In Cancer and Genetics: Identifying genetic modifiers of age of cancer onset

Rare highly penetrant genetic disease alleles cause early disease onset. In some conditions such as Huntington’s chorea, the size of the disease causing allele directly affects age of onset. Beyond known high penetrance and low pentrance risk alleles, we hypothesize that alleles may exist that affect age of disease onset, but not necessarily risk.

You will explore this possibility for cancer by utilising age of onset data from the COIN trial consisting of >2,200 patients with advanced colorectal cancer. We have genome wide genotyping data on over 10 million common and rare polymorphic variants for each patient and you will use this data to seach for alleles that modify age of onset via a genome wide association study. We will perform similar analyses on up to 78,000 patients with cancer from the UK Biobank.

This project has multiple avenues to be followed and will allow you to develop creative free thinking by identifying genetic modifiers across multiple cancer types and to work out their potential mechanisms by designing and performing both stratification analyses and also in silico functional analyses. Identification of genetic biomarkers has the potential to inform patient surveillance, outcome and management.

This is a computer-based statistical analysis project in which programming in R or Python will be essential (can be taught if necessary). You will gain a wide range of expertise in computer based biostatistics and bioinformatics (Pearson chi-square test, Cox survival model, Bonferroni correction, multiple fractional polynomial model, fixed-effects inverse-variance meta-analysis and Q & I-squared statistics, and, analyses using Polyphen and Align-GVGD, and, expression, transcription factor binding site and chromatin localisation data from ENCODE).

For detail click here


Posted on January 18, 2019

PhD scholarship in Plasmid Biology and Bioinformatics

Antimicrobial resistance (AMR) is one of the largest threats against global health and obtaining information about the global prevalence and emergence is essential to guide interventions. The Research Group for Genomic Epidemiology at the Technical University of Denmark, DTU, is together with several partners worldwide and funded by the Novo Nordisk Foundation trying to establish a global surveillance of infectious diseases and antimicrobial resistance based on metagenomic sequencing of urban sewage, and data are now rolling in (www.genomicepidemiology.org, www.globalmicrobialidentifier.org, www.compare-europe.eu).

While plasmids often serve as mediators of gene transfer, the process is also considered to be a strong evolutionary force in microbial environments. The group recently developed a procedure for the isolation of plasmid DNA from various sources, and subjected it to deep sequencing using the Oxford Nanopore long-read sequencing, Illumina paired-end protocol and analysis using public and custom-made bioinformatics tools. For this project we aim to characterize the plasmidome in various environments: e.g., waste water, animal faeces, which house complex yet dense microbial communities, and hold enormous significance for health including AMR research.

The successful student will work in close collaboration with other PhD-students and post docs studying other aspects of antimicrobial resistance and involving expertise in conventional and molecular microbiology, bioinformatics and epidemiology. 

  • You will contribute to the improvement of plasmid extraction from complex samples.
  • You will analyse the NGS data using bioinformatics methods.
  • You will be mainly responsible for studying the occurrence of plasmids and their correlation to AMR in global metagenomic data-sets.
  • You will contribute to build a global distribution of plasmidome occurrence and interaction.
  • You will contribute to understanding the global transmission of AMR.
  • Your research could include identifying plasmids, metagenomic mining, isolation and sequencing of plasmids, studying host-range of plasmids and determining associations between AMR, plasmids, bacterial composition and global epidemiological drivers. 

Qualifications
It is expected that applicants have a master degree where there has been a major inclusion of bioinformatics, computer science or similar.

Please submit your online application no later than 5 February 2019

For detail click here


CompCancer PhD programme 2019

The research training group CompCancer (RTG2424) is a DFG founded PhD programme in Berlin, focussing on computational aspects of cancer research.

CompCancer is a PhD programme (DFG funded research training group) that focusses on computational aspects of cancer research. Contemporary cancer resarch generates enormous data sets characterising tumors at unprecediented molecular details. To integrate and interprete these new layers of data, computational methods are becoming central in cancer research. Increasingly, computational methods are also required for clinical oncology, as more and more patients are receiving therapies based on integrated molecular profiles.

The goal of CompCancer is to develop and apply computational methods on relevant questions of current cancer research, and thereby train the next generation of computational oncologists. CompCancer focusses on research on

  • Personalised and advanced therapies
  • Tumor heterogeneity
  • Therapy resistance

These areas are adressed with contemporary methods including

  • Single cell methods
  • Mathematical modelling
  • Integration of multi-omics data
  • Complex IT systems

CompCancer will start 1.6.2019. We expect to publish calls for PhD positions soon.

For detail click here


Posted on January 16, 2019

PhD students in Bioinformatics, Medical informatics or Computational Biology

The gut microbiome plays a fundamental role in health and disease. CRC 1371 (Speaker Prof. Dr. Dirk Haller) focuses on the digestive tract and proposes an interdisciplinary approach to characterizing the functional relevance of microbiome signatures in the context of inflammation and cancer. Within the INF01 subproject of CRC 1371, we assemble an interdisciplinary team with expertise in medical informatics and bioinformatics to build a central IT platform for the collection and processing of human and non-human clinical, para-clinical and experimental data produced in CRC 1371. In building this platform, you will join a huge collaborative effort to assemble the most comprehensive knowledgebase of the gut microbiome and you will have a chance to bring in your own ideas to unravel the role of the microbiome in health and disease.

Job description
We are looking for skilled PhD students and Postdocs to contribute in building a central IT platform for gut microbiome research. On the medical informatics side, we seek expertise to build up a medical data integration platform that enables harmonization and analysis of sensitive data while adhering to data protection requirements. On the bioinformatics side, we seek expertise to build and integrate pipelines for systematic analysis of heterogeneous experimental data ranging from 16S ribosomal RNA to complex metabolome profiles. Moreover, we seek expertise for developing and integrating state-of-the-art statistical and network analysis methods into the platform. These methods will facilitate knowledge extraction, biomarker discovery and hypothesis generation for the CRC.

Required qualification
Candidates hold a Master degree (or equivalent) or PhD in computer science, medical informatics, bioinformatics, computational biology or biotechnology. They are open minded, active and have a good command of the English language (oral and written). The collaborative character of this project requires excellent team and communication skills as well as technical skills in software engineering and data analysis. Knowledge of Java and / or R is of advantage.

For detail click here


PhD position - Utilizing sequence variation to strengthen the Swiss pig breeding programs

ETH Zurich is one of the world’s leading universities specialising in science and technology. It is renowned for its excellent education, its cutting-edge fundamental research and its efforts to put new knowledge and innovations directly into practice. The Animal Genomics and Animal Genetics groups at the Institute of Agricultural Sciences, ETH Zurich, invite applications for a PhD student in pig genomics.

The objective of the PhD project is to compile a comprehensive catalogue of DNA variation that segregates in two Swiss pig populations using massive whole-genome sequencing data in order to improve the selection of future breeding animals. The successful candidate will be responsible for the analysis of pedigree, phenotype, genotype and whole-genome sequence data of two Swiss pig populations. Trait-associated sequence variants will be identified using bioinformatics and statistical approaches. Strategies will be developed to consider putatively deleterious, disease-associated and beneficial variants for the improvement of genome-based breeding programs. Close collaboration with an industry partner is foreseen in order to seamlessly integrate new findings into existing breeding programs.

The successful candidate should have a strong interest either in animal breeding and genetics, statistical genomics and/or computational biology. The PhD student will be part of a young and dynamic team that enjoys working with big genomic data from animal populations. Applicants should hold a MSc degree in agricultural science, animal science, genetics, computational biology, bioinformatics or related disciplines. Affinity to statistics, bioinformatics and computational genomics is required. The writing of scientific papers and the participation in international conferences requires good knowledge of English.

For detail click here


Posted on January 14, 2019

Doctoral Students in Molecular Medicine and Bioinformatics - FIMM-EMBL International PhD Application 2019

As part of the Nordic EMBL Partnership for Molecular Medicine, FIMM is seeking outstanding candidates for positions of Doctoral Students in Molecular Medicine and Bioinformatics starting in August 2019. FIMM (www.fimm.fi) is an international research institute focusing on human genomics and personalized medicine at the Helsinki Institute of Life Science of the University of Helsinki. FIMM integrates molecular medicine research, technology centre and biobanking infrastructures under one roof promoting translational research in grand challenge projects, specifically, the impact of genome information from the Finnish population in personalized health and medicine, individualized cancer medicine, and digital molecular medicine.

Qualifications and experience: Candidates are expected to have a second cycle academic degree (MSc, MD or equivalent) in biology, biochemistry, bioinformatics, biotechnology, cell biology, computer science, data science, genetics, mathematics, medicine, statistics or other related fields, obtained before the start of the position (August 2019). The successful candidate will have good problem solving, troubleshooting, and analytical skills. In addition, the candidate should be fluent in English, have good interpersonal and written and oral communication skills, and be able to work independently as well as in an international team.

For further information click here


PhD positions in protein design for synthetic biology

RNAct is a EU-MSCA ITN project with as research aim the design of novel RNA recognition motif (RRM) proteins for exploitation in synthetic biology and bio-analytics. This is achieved through a design cycle that starts with computational approaches at the sequence and structure levels of proteins and RNA, in order to select amino acid positions and mutations for large-scale phage display experiments with RNA screening. Viable RRMs will be further investigated at the atomic level with integrative structural biology approaches, and will be applied in synthetic biology, to post-transcriptionally regulate fatty acid processing via RRMs, and in bio-analytics, to detect RNA in-cell and design RNA biochips.

Eligible applicants for these Fellowships (equivalent to PhD positions) must hold a Masters degree of Science (MSc) in the field in chemistry, biochemistry, physical, life sciences or computational sciences as requested in the respective job description. Eligible candidates must, at the time of selection by the host organisation, be in the first four years (full-time equivalent) of their research careers. This is measured from the date when they have obtained their masters degree. Do not apply if you already hold a Ph.D.

For detail click here


Posted on January 11, 2019

Doctoral researcher (PhD student) in Parkinson's Disease Genetics and Genomics

The Luxembourg Centre for Systems Biomedicine (LCSB, https://wwwen.uni.lu/lcsb) at the University of Luxembourg is seeking an enthusiastic team member for the following position: Doctoral Researcher (PhD student) in Parkinson's Disease Genetics and Genomic.

The Luxembourg Centre for Systems Biomedicine (LCSB) is an interdisciplinary research centre at the University of Luxembourg. LCSB develops and applies systems-level approaches to gain insight into the molecular and cellular mechanisms of human diseases. Experimental and computational approaches are combined to analyse the complexity of biological systems underlying disease pathogenesis. The LCSB is pioneering the way for a predictive, preventive and personalised medicine. Neurodegenerative diseases, especially Parkinson’s disease (PD) are major targets within LCSB’s research activities.

We seek a highly skilled doctoral student to work on an international and interdisciplinary biomedical research project on the identification of genetic risk factors for PD (PD) within the recently founded National Center for Excellence in Research on PD (NCER-PD, www.parkinson.lu) and the doctoral training unit PARK-QC - Molecular, Organellar and Cellular Quality Control in Parkinson's disease (https://wwwen.uni.lu/lcsb/doctoral_training_unit/park_qc).

Your Profile

  • Master’s degree (or equivalent) in Computational Biology, Bioinformatics, Human Genetics, Systems Biology or related disciplines.
  • Basic understanding of NGS genomics technologies and state-of-the-art bioinformatics software tools.
  • Good knowledge of human genetics, molecular biology, systems biology, computational modeling, or simulation.
  • Knowledge of at least one programming language (Python, Perl, C++, Java, etc).
  • Basic Linux/Unix skills.
  • Strong interest in interdisciplinary research and systems biology
  • Excellent working knowledge in English (additional language skills, particularly French or German, will be advantageous)
  • Excellent communication skills

Please apply online by submitting your cover letter indicating your motivation for this project, relevant experience and future interests, a full curriculum vitae, and a copy of the relevant diplomas until 31st January 2019.

For detail click here


PhD fellowship on evolutionary histories of fungal and bacterial antimicrobials

Department of Biology, Faculty of Science at University of Copenhagen is offering a PhD scholarship on evolutionary histories of fungal and bacterial antimicrobials in fungus-farming termites, commencing 01.04.2019 or as soon as possible thereafter.  The project will be based at the international research environment in the Social and Symbiotic Evolution Group at the Section for Ecology and Evolution within the Department of Biology. Research in the group cis highly interdisciplinary and combines the fields of evolutionary ecology, molecular microbiology, genomics, and metabolomics to address fundamental questions on how antagonistic (parasitic) and beneficial (mutualistic) microbial symbionts shape host ecology and evolution, how partners complement each other metabolically, and how host-symbiont associations defend themselves against exploitation.

The fellowship will be part of a five-year project titled Disease-free social life without antibiotic resistance, financed by an ERC Consolidator Grant. The application of antimicrobial compounds produced by hosts or defensive symbionts to counter the effects of diseases has been identified in a number of organisms, but despite extensive studies on their presence, we know essentially nothing about why these antimicrobials do not always trigger rampant evolution of resistance in target parasites.

Applicants should hold an MSc degree in biology or bioinformatics with good results and good English skills. As criteria for the assessment of your qualifications emphasis will also be laid on previous publications (if any) and relevant work experience.

The deadline for applications is 15. February 2019, 23:59 GMT +1.

For detail click here


Posted on January 09, 2019

PhD position in Bioinformatics

The Department of Cardiovascular Diseases is seeking a Bioinformatics PhD (m/f) - doctoral candidate - Extend our German Heart Center research team and enhance the scientific knowledge in the field of Coronary Artery Disease (CAD). We are part of different consortia with prestigious academic partner sites. Our scientific goal is to improve the understanding of atherosclerosis. Atherosclerosis is the main risk factor for myocardial infarction and stroke. We are looking forward to a responsibly acting person willing to learn and adapt to a highly dynamic and agile research environment.

Extend our German Heart Center research team and enhance the scientific knowledge in the field of Coronary Artery Disease (CAD). We are part of different consortia with prestigious academic partner sites. Our scientific goal is to improve the understanding of atherosclerosis. Atherosclerosis is the main risk factor for myocardial infarction and stroke. We are looking forward to a responsibly acting person willing to learn and adapt to a highly dynamic and agile research environment.

Major Tasks:
- Development and implementation of novel bioinformatics methods
- Programming and analyzing bioinformatics data with basic knowledge in Python, R and Java. Apply analytical and bioinformatics tools
- Integration, transformation and quality control of datasets. Carrying out statistical tests derived from medical, genetic and clinical research
- Learn to analyze different kinds of NGS/OMICs data
- You will work in an international, team-oriented, academically interconnected environment (we offer the opportunity to also learn from our national and international partner sites)

Key requirements:
- Studies of bioinformatics, biosciences, informatics or a comparable discipline
- Interest/knowledge in developing software and using bioinformatics tools, including such for analyzing and interpretation of high throughput data
- Interest/knowledge in data management and in sequencing
- Knowledge in genetics and systems biology is highly appreciated
- Statistical knowledge
- Ability to write and speak English well is a must, knowledge of German would be advantageous

For detail click here


PhD Student - Epidemiology

The Institute of Epidemiology (EPI) assesses genetic, environmental and lifestyle risk factors which jointly determine the occurrence of major chronic diseases. We focus on the development and progression of metabolic, respiratory and allergic diseases, as well as heart diseases and mental health. Our goal is to better understand the molecular underpinning of disease and to translate this knowledge into personalized approaches of prevention as well as policies to improve health. Our research builds on the unique resources of the KORA cohort and the birth cohorts GINI and LISA. We also play a central role in planning and setting up of the German National Cohort (GNC) and build the GNC biorepository.

  • You will join a highly motivated reasearch team in epidemiologic research, exploiting, among other resources, the large data bases of the German National Cohort and the KORA cohort
  • You will be supervised by experienced, and advanced scientists of the Institute of Epidemiology
  • You will have the chance to initiate or join collaborations with partners inside or outside the Helmholtz-Centre
  • You will participate in the Helena PhD Program of the Helmholtz Zentrum München and graduate from the LMU at the Chair of Epidemiology held by Prof. Peters
  • You will be able to participate in individual courses and / or PhD Programs at the LMU and TUM.

Your Qualifications

  • Excellent Masters or Diploma degree in Epidemiology, Public Health or related subject or equivalent experience and qualification
  • Excellent letter reference by former supervisor
  • Statistical expertise including state-of-the-art and innovative methods (such as causal inference or machine learning, or others)
  • First experience with meta-analysis and / or large complex data-sets
  • Passion for epidemiological research in multidisciplinary teams

For detail click here


Posted on January 07, 2019

PhD position in Molecular Biology

Uppsala University is a comprehensive research-intensive university with a strong international standing. Our mission is to pursue top-quality research and education and to interact constructively with society. Our most important assets are all the individuals whose curiosity and dedication make Uppsala University one of Sweden’s most exciting workplaces. Uppsala University has 42,000 students, 7,000 employees and a turnover of SEK 6.7 billion.

Project description: A PhD student position is available for a highly motivated individual with interest in vascular/developmental biology to join the laboratory of Dr. Taija Mäkinen at Uppsala University, Dept. of Immunology, Genetics and Pathology. Research in the lab focuses on understanding the regulation of the lymphatic vasculature in physiological and pathological conditions. The selected candidate will characterize mouse models of genetic lymphatic vascular diseases and study the underlying mechanisms by using a variety of molecular and cell biological approaches (including advanced microscopy, flow cytometry and RNA sequencing).

Qualifications: The applicant should have MSc degree in a relevant area (e.g. Molecular Biology). Experience with experimental research, in vivo work including tissue dissection, preparation and staining, as well as molecular and cell biology and (confocal) microscopy are required. Experience with image processing and analysis would be advantageous. Strong merit would be knowledge of vascular and/or developmental biology. Good skills in oral and written English are required.

Last application date 16.Jan.2019 11:59 PM CET

For detail click here


PhD position in Molecular Biotechnology

The Department of Chemistry seeks a motivated and enthusiastic PhD candidate to join the Research Group in Macromolecular Chemistry. The successful PhD candidate will become a member of an international and interdisciplinary research team focusing on applied research (https://uit.no/prosjekter/prosjekt?p_document_id=561318). Particularly this applies on characterization and development of enzymes originating from the arctic marine environment for use in molecular biology and diagnostic applications.

The PhD candidate will investigate and map residues involved in the mechanisms of substrate recognition and strand-displacement DNA synthesis of DNA polymerases. The main focus is on characterizing and designing new enzyme variants in order to understand regions and residues essential for strand-displacement DNA synthesis. The candidate will employ a variety of methods in macromolecular Chemistry (such as DNA mutagenesis, recombinant protein production and purification, enzymology and structural biology).

You must hold a Master’s degree or equivalent in molecular biotechnology, biochemistry or molecular biology, with an average of Norwegian equivalent grade of C or better. Both a strong academic record and a genuine interest in conducting research are essential to qualify for the position. This must be demonstrated by your Master’s thesis, academic record, and other application materials (see below). Personal suitability for the position will also be emphasized.

Jobbnorge ID 162521

Deadline Thursday, January 17, 2019

For detail click here


Posted on January 04, 2019

PhD Candidate in Bioinformatics (Metagenomics)

The Department of Chemistry seeks a motivated and enthusiastic PhD candidate to join the Molecular Biosystems Research Group. The successful PhD candidate will become a member of an international and interdisciplinary research team, which combines informatics, bioinformatics and experimental work to develop/implement tools, pipelines and databases for microbiome research. As a student, you will enter an international and collegial environment, and be enrolled in the Norwegian ‘BioCat graduate school in biocatalysis’, which provides top-level graduate courses in both scientific and transferable skills, arranges national PhD conferences and offers generous travel stipends for student research visits to collaborator laboratories (see https://site.uit.no/biocat/).

Qualifications
The candidate must hold a Master’s degree or equivalent in Bioinformatics or Computational Biology or equivalent, with an average of C or better according to the Norwegian system. Good academic performances, and a genuine interest and motivation for performing research are essential to qualify for the position. Relevant experience from work with metagenomic data is an absolute advantage. Finally, personal qualifications such as the ability to collaborate and work with others as well as being able to work independent will be emphasized.

Jobbnorge ID 162525

Deadline Thursday, January 17, 2019

For detail click here


Doctoral (PhD) student in occupational exposure to metals and its toxicity

The Institute of Environmental Medicine (IMM) is a department at Karolinska Institutet and an interdisciplinary research institution within the broad field of environmental medicine. IMM conducts cutting edge research within the areas of environmental and occupational medicine, toxicology, physiology, epidemiology, and biostatistics with the aim to clarify how environmental and lifestyle factors affect our health and which role genes have. IMM also serves as a scientific advisor to public authorities within the area of environmental medicine and IMM scientists participate in national and international expert groups.

The PhD student is expected to have a very strong interest in biomedical research and have a documented experience of genetic and toxicological methods. The student will actively participate in the research by performing genetic, epigenetic and toxicological analyses on collected human samples (blood, urine, tumours) and primary lung cells. Further, the student will perform bioinformatic analysis and critically evaluate, compile and present the results, both in writing and orally. In the longer term, the PhD student will work independently to formulate new hypotheses and present and discuss the results and hypotheses in large and small groups. The graduate program will be done in a creative environment in close cooperation with other PhD students, post docs and researchers.

Last application date 16.Jan.2019 11:59 PM CET

For detail click here


Posted on January 02, 2019

Doctoral (PhD) student position in Immunotherapy

At the Department of Oncology-Pathology basic, translational and clinical research and educational activities related to cancer is carried out. Approximately 300 people from over 40 nations are currently working at the department. About 30 research groups with various cancer research profiles are involved and we have around 110 PhD students. The Department of Oncology-Pathology is responsible for undergraduate courses in Pathology, Oncology and Forensic Medicine for medical students, as well as for Tumor biology courses for biomedicine students and Pathology courses for opticians.

The overall aim is to build on these clinical results and improve ACT for patients with metastatic melanoma and furthermore extend these findings to other solid cancers. The candidate will have several projects aiming to improve and refine the cell product used to treat patients with a metastatic disease to achieve a better anti-tumour response and a better clinical outcome. This will include projects involving identification of tumour-specific mutations, neoantigens, and how to use these for a better expansion of tumour specific T cells. In addition, the candidate will also be involved in project aiming to develop an efficient, specific and harmless strategy for making cytotoxic cells (T cells and/or NK cells) resistant against tumor- or therapy related stress response (reactive oxygen species).

Skills and personal qualities We are seeking a highly talented and enthusiastic doctoral candidate with a M.Sc. degree and a background in immunology and documented experience in cell culture, flow cytometry, isolation and expansion of cytotoxic immune cells and experience in in vitro assays used to study T and NK cell function (such as degranulation assay, chromium release assay, ELISA). Basic knowledge in immunology is a must and theoretical and practical knowledge regarding oxidative stress and related assays is preferable. Experience in PCR and/or western blot is a merit.

Last application date 10.Jan.2019 11:59 PM CET

For detail click here


PhD candidate 'pediatric endocrine disease'

Congenital adrenal hyperplasia (CAH) is the most common inherited disorder affecting adrenal steroid synthesis. The clinical presentation depends on the severity of the enzyme deficiency with -in the most severe cases- complete cortisol and aldosterone deficiency causing an Addisonian crisis within the first weeks of life and prenatal virilisation of the affected females. The accumulation of steroid precursors before the enzymatic block serves as a diagnostic marker for CAH.

The first aim of this project is to study the etiological features of TART in CAH patients. The PhD candidate will perform transcriptome profiling using RNA-sequencing (RNAseq) to compare the expression profiles of pooled RNA samples of TART, with available fetal and adult normal adrenal and testis tissues. Using Ingenuity Pathway Analyses and other applicable bioinformatics analyses the PhD candidate will identify putative TART-inducing mechanisms, which will also include drugable pathways that could eventually be used for prevention of TART development.

Requirements

The ideal candidate fulfils the requirements:

  • Master degree in Medical Biology, Molecular Life Sciences, medicine or equivalent;
  • Experience with bioinformatics, statistics, immunohistochemistry, modelling;
  • Strong motivation to succeed in scientific research;
  • Be able to work in a team;
  • Fluent in English;
  • Independent and well-structured working style.

For detail click here


Posted on December 31, 2018

MRC 4 Year PhD Studentships In Life Long Health

This 4-year PhD programme offers an exciting opportunity for outstanding graduates to undertake research into health across the life course. The first year is spent enhancing your scientific skills through three mini-projects with different supervisors who are based at or affiliated with the LHA. The subsequent three years are spent on your chosen PhD research project.

The MRC Unit for Lifelong Health and Ageing at UCL (LHA) is offering a new 4 year PhD programme for outstanding students across a range of different research topics. The mission of the LHA is to identify biological and social factors that affect lifelong health, ageing and the development of chronic disease, and to use findings to design and test interventions that enhance healthy ageing. The MRC National Survey of Health and Development (NSHD) is the core resource for this work. NSHD is a birth cohort established in 1946 with frequent follow up, and is enhanced by multidisciplinary collaboration with other national birth cohorts and population cohorts. We further aim to exchange knowledge gained with policymakers, health practitioners and other research users, and promote public understanding of healthy ageing.

During the PhD programme students will be encouraged to take part in taught methods and statistics courses, weekly student-run seminar series and present their findings at national and international conferences.

Research areas

  • Cardiology/cardiovascular science
  • Musculoskeletal metabolism
  • Acute illness and chronic function
  • Genetic epidemiology or bioinformatics
  • Quantitative social science
  • Neurovascular imaging
  • Chronic disease epidemiology
  • Life course statistics and/or causal analysis

For detail click here


PhD Position in Biomedical Engineering

Within the Gerontechnology and Rehabilitation Group, clinicians, psychologists, and engineers collaborate with a goal to develop and evaluate assistive and rehabilitative technologies to enhance autonomy and promote independent living in the elderly and patients.

We are seeking a motivated PhD student to develop and implement tele-rehabilitation applications for both clinical and home settings. The main tasks of the PhD thesis include software development of a new (tele-)rehabilitation system for speech therapy and cognitive training. The candidate will work in close interaction with clinicians, nurses, therapists, patients and caregivers for design specifications and evaluation of the new system.

For this position, we are looking for a dynamic and self-motivated person with a master's degree in computer science, bioinformatics, information technology and/or biomedical engineering. Interest to collaborate with an interdisciplinary team of clinicians, engineers, neuroscientists, and willingness to interact with patients is important.

For detail click here


Posted on December 28, 2018

PhD position : Deep learning to mine genomics datasets

Location: Oxford Brookes university (Department of Biological and Medical Sciences)

High throughput experiments that generate complex/ information rich datasets are increasingly found in biology. However, to fully mine and visualise these datasets it is necessary to make use of computational methods using various bioinformatic approaches. One area that holds great promise for dealing with these high throughput biological datasets is that of deep learning. Deep learning has produced a great leaps in performance for a number of computational tasks, but has only recently started to be trialled in the biological community. Concurrent with improvements in Deep learning we are also seeing rapid improvements in technologies such as single cell sequencing, powered by large projects such as the Human Cell Atlas.

This technology provides expression data for hundreds of thousands of cells which can be used to help characterise various biological systems. This can be done for whole organisms, across developmental time courses or between sub-regions of tumours. These new single cell datasets when combined with novel deep learning methods is likely lead to great advances in our understanding of cell biology and evolutionary/ developmental processes. In this PhD we will make use of publicly available single cell datasets and develop novel deep learning strategies to fully utilise them for various biological questions.

The research will have a focus on knowledge discovery in developmental processes and diseases such as cancer. Another focus will be to build systems capable of harnessing the large datasets even when only unlabelled data is available. Apart from biological knowledge discovery the project will also generate novel tools that could then be applied by the research community more generally to a wider range of datasets. The project will be suitable for a student with either a computational or biological background and a willingness to explore this exciting new frontier in biology.

For detail click here


3-year PhD Studentship – Identifying metabolic biomarkers

When muscle is lost in ageing and disease, clinical outcomes are significantly impacted since loss of muscle mass impairs not only locomotory function but also whole-body metabolic health. As such there is a strong relationship between low muscle mass and increased disease risk and mortality outcomes in both healthy ageing and diseases associated with severe wasting. Early identification of those at risk of greatest musculoskeletal decline is important to ensure optimal interventional strategies can be implemented at an early stage to prevent and/or delay muscle wasting in these individuals, thereby maintaining musculoskeletal health for longer and preventing related disease risk. This studentship will use novel analytical techniques (metabolomics) to identify unique metabolite signatures of musculoskeletal decline in both healthy ageing (sarcopenia) and disease (cachexia), so that at risk individuals can be stratified accordingly.

This studentship is a 3-year funded studentship through the MRC-ARUK Centre for Musculoskeletal Ageing Research (CMAR). Students should have home or EU status: and have been 'ordinarily resident' in the UK for 3 years prior to the start of the studentship to be eligible for the full award (tuition fees, research support costs, and a tax-free stipend at the Research Council rate). Applicants who have been 'ordinarily resident' in another EU member state may be eligible for a fees only award. Please see RCUK terms and conditions for further information.

Applicants should have a strong background in physiology and metabolism, and ideally a background or knowledge of the application of mass spectrometry to understanding metabolism. They should have a commitment to research in ageing and musculoskeletal metabolism and hold or realistically expect to obtain at least an Upper Second Class Honours Degree in Biochemistry or Physiology or a relevant subject.

Closing Date: Thursday 31 January 2019

Reference: MED1514

For detail click here


Posted on December 26, 2018

PhD nutrition, heart disease and kidney function

We are looking for a candidate for a four-year PhD trajectory in our project on the prediction of kidney function decline and mortality in post-myocardial infarction (MI) patients. Kidney function decline is strongly associated with preterm mortality in post-MI patients, but it is still unclear why. In this project we focus on nutritional and molecular aspects in the prediction and aetiology of kidney function decline in this specific patient group. With this research we expect to define risk profiles for post-MI patients and their risk for kidney function decline and preterm mortality.

We aim to combine advanced epidemiological analyses for risk factors (including nutrition and lifestyle) with biomarkers and ‘omics’ analyses. The research project includes important methodological challenges regarding the combination of classical risk factors with biomarkers and ‘omics’ data, within the context of epidemiological research. Therefore, experience with human molecular data and with epidemiological research is preferred.

For this position we request that the candidate:
- has an MSc degree in (clinical, nutritional or molecular) epidemiology, biomedical sciences, nutrition, bioinformatics, or a related field;
- has experience with writing scripts in SAS or R;
- works in an independent and self-motivated manner;
- is fluent in the English language

You can apply online at http://www.wur.nl/en/Jobs/Vacancies.htm until 15 January 2019.


MRC -funded IMPACT (Integrated Midlands Partnership for Biomedical Training ) Doctoral Training Partnership 3.5 Year PhD Studentship

Leicester Cancer Research Centre (College of Life Sciences) and Department of Informatics (College of Science and Engineering) Supervisors: Dr David Guttery (Leicester Cancer Research Centre) Dr Huiy u Zhou (Department of Informatics) and Professor Jacqui Shaw (Leicester Cancer Research Centre)

This cross- College studentship aims to develop a machine -learning approach for accurately identifying oncogenic pathway activation and predicting survival in patients with breast and endometrial cancer. Breast and endometrial cancers are the two most com mon cancers in women in the UK, with a significant impact on lives and healthcare. Genetically, both diseases are highly heterogeneous with complex aetiologies, making prognosis and prediction of relapse challenging.

Closing date for applications 20 th January 2019

For detail click here


Posted on December 24, 2018

PhD Position in Functional Proteomics in Cancer Precision Medicine

The candidate will be employed at the Department of Biochemistry and Molecular Biology at SDU and will be enrolled in the department's PhD programme under the supervision of Prof. Ole N. Jensen.

The research project aims to develop novel approaches for early cancer detection and diagnostics by using advanced mass spectrometry and proteomics approaches. The project entails the characterization of proteins and proteomes in human kidney tissue and renal cell carcinoma tumor tissue from patients, including also protein post-translational modifications (e.g. protein phosphorylation). The candidate will develop and apply LC-MS based technologies and use advanced bioinformatics/statistics tools to characterize and identify molecular features of renal cell carcinomas in the context of precision medicine.

We are seeking outstanding candidates with documented experience in protein biochemistry and functional proteomics in the context of biomedicine. Expertise in protein mass spectrometry including LC-MS is a requirement. Candidates will be part of an international research group, and good interpersonal skills and fluency in the English language (reading/writing/speaking) are a requirement.

For detail click here


PhD Student Position in Machine Learning for Patient Data Analysis

This project is a joint collaboration between the Johns Hopkins University (JHU; Baltimore MD, USA) and the HMGU (Munich, Germany). The primary location for our team is at the HMGU Munich center. Our team members will have opportunity to visit and work with faculties and researchers at the Johns Hopkins University and Hospital.

Our goal is to model, predict, and find causal factors related to the outcomes of interest, such as length of stay, prolonged intubation, blood transfusion, and renal failure. In addition to project-specific work, you will have the opportunity to mentor students at the graduate and undergraduate level, and may initiate and pursue research on supplemental ideas in collaboration with faculty aligned with their interests.

Your Qualifications

  • MSc or PhD degree in computer science, statistics, mathematics, data science or equivalent
  • Strong background in machine learning (graphical models, Bayesian and neural networks), statistics, and preferably causal inference methods
  • Knowledge of and/or experience with time-series data, preferably clinical data
  • Programming expertise in Python, R, and SQL
  • Interest and/or experience in working with healthcare problems (particularly surgical procedures)
  • Demonstrated skill in scientific writing

For detail click here


Posted on December 21, 2018

PhD Student Positions in Life sciences

Laboratory of Protein Structure at the International Institute of Molecular and Cell Biology (IIMCB), Warsaw, headed by Marcin Nowotny, is looking for a PhD student. We are looking for a person motivated to develop a career in an interdisciplinary and international team studying the mechanisms of DNA repair. As a PhD Student you will be involved in production of protein using different expression systems, purification of proteins, crystallization and structure determination by crystallography and/or cryo-EM.

The laboratory is located in the International Institute of Molecular and Cell Biology in Warsaw (www.iimcb.gov.pl) – one of the top-ranked (A+) Polish research institutes, that provides stimulating and interdisciplinary research environment and opportunities of the large biomedical campus. Research topics at IIMCB cover the wide area of structural biology, bioinformatics, computer modeling, molecular and cell biology, neurobiology, cancer biology, and developmental genomics (zebrafish model). The Institute is equipped with state-of-the-art technology, has excellent core facilities and supportive administration. IIMCB benefits from numerous generous funding schemes for basic research through grants from international and national sources www.iimcb.gov.pl/en/research/grants.

Requirements:

• Master’s degree (or equivalent) in life sciences or related area (defended before contract starting date)
• Eligibility for PhD studies in Poland under the supervision of prof. Marcin Nowotny
• Documented laboratory experience in at least one of the following disciplines: biochemistry, structural biology, molecular biology
• Very good written and oral communication skills in English
• A proactive approach to achieving tasks and objectives, good interpersonal skills, collaborative attitude

Deadline for applications is January 2nd, 2019. Job starting date is March 2019.

For detail click here


PhD student in Microbial Electrochemical Conversion of Syngas

The Department of Biology and Biological Engineering was founded January 1 2015, and started off with high ambitions. The aim was to grow and become a leading center of innovation by combining the latest research in life sciences with biochemistry. And the department got off to flying start. In its first year, the numbers for publication, citation and external funding have been excellent.

Information about the division The PhD position is placed at the Division of Industrial Biotechnology within the Department of Biology and Biological Engineering at Chalmers University of Technology. The Industrial Biotechnology group is a young, dynamic and international group of researchers established in 2008 and counts now around 40 members. The common denominator of the research activities in the group is to optimize the use of renewable raw materials for the sustainable production of fuels, chemicals and materials within the main concept of biorefinery.

Qualifications The candidate must hold a MSc degree in Biotechnology/Bioengineering, Synthetic, Systems or Molecular Biology, Microbiology or other related disciplines. The successful candidate has knowledge on molecular biology and some lab practice as well as some knowledge in bioinformatics. Previous experience in working with RNA-sequencing data analysis, anaerobic bacteria or bioelectrochemistry is a strong merit.

Application deadline: 31 January 2019.

For detail click here


Posted on December 19, 2018

Graduate student in computational biology and bioinformatics

Research in our laboratory is focused on the discovery and analysis of genomic variants and their relevance to diseases. Of particular interest are large variants, such as, deletions and duplications of thousands and millions of nucleotides in individual genomes. Special emphasis is on the discovery and analysis of somatic variants — those originating in human cells during their life span — as these can cause cancer and various diseases.

Focus areas

  • Genomic variant discovery from sequencing
  • Prediction of variant function and impact
  • Somatic variations and single cell genomics Cancer genomics

Graduate students (M.S or Ph.D.) wishing to conduct research in the Abyzov lab at Mayo Clinic are invited to contact Dr. Abyzov (abyzov dot alexej at mayo dot edu). The choice of the project will depend on the applicant's interests and skills. However, the research must be purely computational and focus on one of the following main fields of computational biology: population/personal human omics, cancer omics, single cell and somatic omics, and the analysis of next-generation sequencing data. Specific sub-areas of interest are discovery, annotation, and the functional annotation of human genomic variants such as SNPs, SNVs, indels, structural variations, retrotransposition, etc.

For detail click here


Funded PhD  - Epigenetics and Inflammatory bowel disease

Despite on-going efforts approximately 40% of patients with chronic inflammatory bowel disease - Ulcerative Colitis (UC) fail to respond to standard-of-care biologic treatment. This thereby presents a significant unmet clinical need that requires to be addressed. The DETECT program is a distinct and innovative consortium of experts from clinical, academic and industrial sectors. Within DETECT, using novel genome-wide next generation sequencing approaches to map the epigenome of inflamed tissue, coupled with leading-edge systems modeling we aim to identify DNA methylation biomarker signatures to predict response to biologic treatment in UC and examine the potential for DNA methyltransferase inhibitors as a new approach to UC therapy.

This research program provides a unique training environment to the PhD candidate by providing excellent training in state-of-art skill sets encompassing both wet-lab and bioinformatic approaches, through interaction with the various academic, industrial collaborators and clinical partners. In addition, the student will be encouraged to participate in the various outreach activities organized within the programme as well as present his/her work at both national/international meetings.

The successful candidate should be able to demonstrate the following:

Essential:

  • An Bachelor or Master’s degree (minimum grade 2.1 or above) in Biological sciences/molecular biology/genetics or Bioinformatics
  • Good communication skills
  • Strong organisational and administrative skills
  • Ability to work on one’s own initiative as well as in a multidisciplinary, team environment
  • Willingness to undertake training and career development
  • English language requirements for candidates who do not speak English as their first language: an IELTS score of 6.5 or above

For detail click here

 PhD scholarship in Bioinformatics, Genomics and Life Science:


Update  on  June 13, 2018

PhD Studentship - Metabolic reprogramming in human

PhD project title: Metabolic reprogramming in human ES/iPS cell models of neurodegenerative disease Supervisors: Lia Panman (MRC Toxicology Unit, University of Cambridge) Muireann Coen (AstraZeneca) Will Redfern (AstraZeneca) Project description The Medical Research Council Toxicology Unit, is an internationally renowned institution focussed on the delivery of field-changing mechanistic insights into toxicology and disease. The Unit is part of the University of Cambridge; it is currently located in Leicester and will be relocating to Cambridge in early 2020.

Students will be registered with the University of Cambridge for the duration of the studentship. Successful applicants will enjoy membership of a University of Cambridge College from commencement of their PhD in October 2018, but will initially have only limited access to College facilities due to the location of the Unit. The studentship if funded by the MRC Integrative-Toxicology Training Partnership (ITTP) and the training includes courses covering aspects of toxicology and molecular sciences. A part of the project will be carried out at AstraZeneca (Cambridge) and Imperial College (London) in collaboration with Muireann Coen and Will Redfern.

Candidates must expect to obtain qualifications at the level of a first-class or 2.1 Honours Degree in a biological science or related discipline and to fully satisfy the residence requirements of the UK Research Councils. A fees-only award will be available to EU nationals who are not ordinarily resident in the UK. Students who are liable for fees at the 'overseas' rate are not eligible for these studentships.

This advert will remain open until 30th June 2018 or until a suitable candidate is found.

For detail click here


PhD student position - Analyses of Chromatin Conformation Dynamics

The Regulatory Genomics Laboratory at the Max Planck Institute for Molecular Biomedicine in Muenster, Germany offers a PhD student position in Genomic Analyses of Chromatin Conformation Dynamics. The laboratory seeks to appoint a highly motivated scientist to work on dissecting the molecular mechanisms that regulate chromatin conformation in eukaryotes, which is a strong focus of the group.

We are looking for an enthusiastic and talented graduate (MSc or BSc) in biology, bioinformatics, or related fields, and with a strong drive to excel in a highly international and collaborative environment. Previous experience in genome-wide data analysis or programming skills (R, Python) will be advantageous, but not required prior to joining the laboratory. Please detail your interest or your previous experience in dealing with genomics data in the cover letter.

The position is offered initially as a fixed-term appointment for one year with the possibility of further extension following a successful evaluation. The position is available immediately. PhD students will receive a compensation according to pay level 13 (50 %) of the contracts for the civil service (TVöD, Tarifvertrag für den öffentlichen Dienst).

Applications received before 30 June 2018 will be considered first.

For detail click here


Posted on June, 2018

PhD student in "Computational population epigenomics"

The Institute of Computational Biology (Helmholtz Zentrum München) together with the Plant Science Department (Technical University of Munich, School of Life Sciences) is looking for a PhD student in "Computational population epigenomics“

The past decade has seen unprecedented advances in epigenomic measurement technologies. It is now possible to characterize epigenomes at high resolution and at reasonable cost. Efforts are underway in various species, including plants and humans, to measure the epigenomes of a large number of individuals with the goal of identifying functionally-relevant differences. A major bottleneck in these endeavors continues to be the need for efficient computational and bioinformatic methods that can aid in the genome-wide detection of patterns of epigenomic variation. The goal of the PhD is to develop and build on robust data analysis methods, and to device new metrics for the quantification of population epigenomic data.

Your Qualifications:

  • Appropriate studies (Masters/Diploma) in physics, mathematics, bioinformatics, computer science or related disciplines
  • Strong programming skills
  • Strong interest or ambition to learn about epigenetics and molecular biology
  • Good knowledge of statistics

For detail click here


Two PhD positions at the Department of Clinical Science

At the University of Bergen, Faculty of Medicine and Dentistry, Department of Clinical Science, two full-time temporary PhD-positions are available for a period of three (3) years.     The positions are part of the project “Dissecting causal mechanisms of non-coding variants in metabolic disease”, funded by the Norwegian Research Council.

The main objectives for the position are to experimentally manipulate candidate genetic variants, master regulators and target genes in human cells and animal models, and test effects of this manipulation on relevant cellular and organismal functions, and further link these effects to clinical data from patient cohort/prospective intervention studies. The work will be performed in a research environment with other doctoral and master students and researchers working on similar projects.

Qualifications and qualities

  • The successful applicant must hold a cand. med. or equivalent master’s degree, and should have experience from relevant research projects
  • Personal skills will be emphasized, including academic quality, research experience and ability to cooperate and work in a team. The candidate should be able to work independently, and have a strong commitment and enthusiasm for research and for learning/establishing new experimental/analytical techniques
  • The successful applicant must be fluent in oral and written English
  • The applicant must have a theoretical background in molecular and cell biology, genetics, metabolism and physiology, and should have prior knowledge of adipocyte biology

For detail click here


Posted on June, 2018

Ph.D. Student in Computational Biology and Machine Learning

KTH Royal Institute of Technology in Stockholm has grown to become one of Europe’s leading technical and engineering universities, as well as a key centre of intellectual talent and innovation. We are Sweden’s largest technical research and learning institution and home to students, researchers and faculty from around the world. Our research and education covers a wide area including natural sciences and all branches of engineering, as well as in architecture, industrial management, urban planning, history and philosophy.

The project is concerned with Machine Learning and probabilistic modeling applied to single cell expression analysis. Methodologically, this project will be focused on advanced methods for computational inference such as Expectation Maximization, Dynamic Bayesian Models, and Deep Convolutional Neural Networks, as well as implementation of such methods on modern high performance computers and clusters. We expect to collaborate with groups developing new experimental methods, particularly single-cell methods, at SciLifeLab as well as with international collaborators.

Qualifications:
A suitable background for this position would be a master’s degree of Science in Computer Science, Statistics or any other discipline with large component of quantitative science. Programming skills and language skills are required. Knowledge of biology and computational biology are regarded as advantageous qualifications.

Last application date     15.May.2017

For more click here


PhD scholarship in Development of multiplex single molecule counting techniques

Applications are invited from suitably qualified candidates for a position funded by the Marie Sklodowska-Curie Innovative Training Network (MSCA-ITN) project “BBDiag” within the Horizon 2020 programme of the European Union. The appointment will be on a temporary basis for a maximum period of 3 years (PhD student) with start June or July 2017. The student will be employed as a PhD student at the Dept. Micro and Nanotechnology, Technical University of Denmark (DTU Nanotech.

Responsibilities and tasks
The PhD student will be a member of this multi-disciplinary team and will be responsible for the development of single molecule sensing techniques including

  • Micro-fabrication of clean room substrates for sample partitioning
  • Sandwich immunoassays
  • Multiplexing of assays
  • Testing clinical samples
  • Methods for statistical analysis

Qualifications
Candidates should have a master's degree in engineering (or a similar degree) with a background in nano-bio-technology, nanotechnology or molecular biology.

For more click here


Posted on March 22, 2017

PhD studentships in Biological Sciences

ESR (Early Stage Researcher) position for 36 months at Medical Research Council Cancer Unit, University of Cambridge, Cambridge, UK

The Frezza laboratory focuses on understanding the role of the mitochondrial enzyme and component of the tricarboxylic acid (TCA) cycle Fumarate Hydratase in tumorigenesis. We have recently demonstrated that fumarate, accumulated in FH-deficient cells, elicits a powerful epigenetic reprogramming that leads to the suppression of miRNA200, and induction of epithelial¿to-mesenchymal transition (Sciacovelli et al, Nature 2016). This epigenetic and phenotypic switch makes FH-deficient cells more motile and invasive, predisposing to metastasis. Although we demonstrated that fumarate has a role as epigenetic modifier, its effects on chromatin structure and function are still unknown. This project will help to elucidate the link between TCA cycle dysfunction, accumulation of fumarate, and downstream epigenetic changes involved in tumorigenesis. To this aim the ESR will investigate the hypothesis that fumarate controls the activity of histone and DNA demethylases involved in DNA and histone methylation, causing broad epigenetic changes. The ESR will first generate a 3D cellular model of FH-deficiency by deleting FH in human renal cell lines obtained using CRISPR technology.

PhD program starting date: 01/10/2017

Required Educational Level  Degree: Applicants should hold a Masters level Degree in Biological Sciences in the field of Biochemistry, Cell Biology, Cancer Biology.

The closing date for applications is 30th April 17. The date of interviews is TBC.

For detail click here


PhD position (Doctoral Researcher)  in Systems Biology

The Leibniz Institute for Natural Product Research and Infection Biology – Hans Knöll Institute – (HKI, www.leibniz-hki.de) investigates the pathobiology of human-pathogenic fungi and identifies targets for the development of novel natural product-based antibiotics. The Research Group Systems Biology and Bioinformatics invites talented and highly gifted candidates to apply for a doctoral researcher.

The project is part of an international collaboration with Queen Mary Hospital, the flagship teaching hospital of The University of Hong Kong (Hong Kong). Our group has previously developed in house pipelines for the independent analysis of metagenomic, metatranscriptomic and meta-metabolomic data. In the framework of this project these pipelines will be further revised and upgraded to accommodate combined analysis for a large number of multi-meta-omic samples. Furthermore, we plan to integrate in novel ways these meta-omic datasets for modelling the association of microbial communities and C. albicans.

Your profile: A strong interest in conducting collaborative research on the topic outlined above is paramount. Candidates are expected to be interested in working at the boundaries of several research domains.

  • Master´s degree in Systems Biology, Computational Biology, Bioinformatics, Biophysics or a related discipline.
  • Knowledge in statistical methods in the context of biological systems.
  • Experience with programming (Python, Perl, C++, R).

Complete applications in English should include CV, certificates, transcripts, a brief statement of research experiences and interests and the addresses of two possible referees, and should be submitted by April 21, 2017 via the online application system of the HKI.

For detail click here


Posted on March 10, 2017

PhD studentship in Biomedicine

Project: Investigation into the impact and effect of systemic iron deficiency, and iron repletion, on skeletal muscle function

 The work will involve the mechanistic role of iron and its function in tissues. Iron has two important functions: assisting in the manufacture of blood cells to transport oxygen, as well as providing key ingredients in the cellular ‘power house’ (mitochondria) that uses oxygen to generate energy for muscles. New intravenous (IV) iron treatments are available, enabling full treatment in a single infusion. IV iron is known to be efficacious for correcting iron deficiency with or without anaemia, but we do not know if overall fitness and skeletal muscle function is improved. Furthermore, we do not know the mechanism of how ID, anaemia or treatments thereof may impact iron repletion on tissues.

Person Specification

•A good (First or Upper Second Class Bachelor’s) degree in a biomedical or pharmacological subjects (or equivalent EU/overseas degree), and ideally an MSc in a related area.

•An interest in iron deficiency, anaemia and mitochondrial biochemistry, and a desire to learn more.

•Strong analytical/statistical skills.

•Enthusiastic, organised with good communication skills - especially in written English.

•A strong work ethic, with the ability to think creatively and work independently.

•Develop pre-clinical models of iron deficiency and anaemia under the direction of Professor Toby Richards and Dr Anna Butcher.

For detail click here


E-cigaratte use in pregnancy and diabetes PhD scholarship

One in four Australian adults has either type 2 diabetes or impaired glucose tolerance. Cigarette smoking increases the risk of diabetes. E-cigarettes are seen as the new safe alternative to tobacco cigarettes, but our preliminary studies would suggest otherwise. This PhD project (in collaboration with A/Prof Brian Oliver) will evaluate the risks posed by maternal vaping upon the development of diabetes in model systems. The results will inform the community of the risks that e-cigarette use has, and ultimately reduce the morbidity and mortality of diabetes.

Essential qualifications 
H1 Honours or equivalent (H2 Honours with 1 year post qualification research experience / Research Masters).

How to apply
Open only to Australian Residents or Citizens for commencement anytime between March - August 2017.  Applicants are encouraged to phone Dr Hui Chen on 9514 1328 prior to applying. Send your CV and a half page expression of interest to: Dr Hui Chen.

For detail click here


Posted on March 07, 2017

Epigenetics of chlamydial infection PhD scholarship

Chlamydial infections and their associated diseases are often asymptomatic and severe disease outcomes can take years to manifest. This project will apply bioinformatic analysis of high-throughput sequencing data to gain insights into fundamental chlamydial biology and disease pathogenesis by epigenetic dysregulation of the human genome. Epigenetically dysregulated genes may facilitate chlamydial pathogenesis and disease progression, either by direct chlamydial interference or by innate responses, and may be candidate biomarkers of infection or disease.
Desirable skills and qualifications
  • Expertise in programming (R, Python or similar), data visualisation and/or computational biology;
  • Open to international and domestic students for commencement in 2017.

How to apply

Send your CV and a half page expression of interest to: Associate Professor Garry Myers.
Applicants for the scholarship must also apply to be admitted to the PhD degree at UTS.
Applications close: 15 March 2017

For detail click here


PhD Position  Biomedical Image Analysis 

Location: Biomedical Comput er Vision Group  University of Heidelberg, BioQuant Center, IPMB, and DKFZ

The research group Biomedical Computer Vision (BMCV) at the University of Heidelberg and  the DKFZ currently offers a PhD position in the field of Biomedical Image Analysis. The task  is the development of innovative methods for  automated analysis of 3D microscopy images.  Focus  is  on  the  segmentation  and  quantification  of  cells  and  subcellular  structures  in  3D   volume images with the aim is to improv e medical diagnosis and therapy. The work is funded  by  the  Federal  Ministry  of  Education  and  Research  (BMBF)  and  carried  out  in  close   cooperation  with  biomedical  partners  at  Heidelberg  University  Hospital  and  the  DKFZ   Heidelberg.

Candidates   must   have   a   Master’s   (Diploma)   degree   in   Computer   Science,   Electrical    Engineering,    Medical    Informatics,    Biomedica l    Engineering,    Bioinformatics,    Applied     Mathematics,  Physics,  or  a  related  discipli ne.  We  expect  experience  in  Image  Analysis  as   well as good mathematical and programming skills. Candidates should be highly motivated,  team-minded, and interested in interdisciplinary research.

For detail click here


Posted on March 06, 2017

CRUK 4 Year PhD Studentships 2017

Studentships are fully funded for 4 years commencing October 2017. Cancer Research UK sponsorship includes generous stipend, tuition and bench fees. Students trained within our research groups will matriculate from the University of Manchester.

Tumour Suppressor Group - p53 Mutations in Small Cell Lung Cancer     
Applications Close Monday 10 April 2017 (2400 hrs GMT)     Interviews: Friday 21 April 2017

Applications are invited from exceptionally high calibre students – recent graduates or final year undergraduates who have, or are expected to obtain a first or upper second class honours degree and who are highly committed to pursuing a PhD in cancer research.  The importance of p53 mutations in human cancer is clear with over 50% frequency across all cancers but reaching more than 90% in small cell lung cancer.  This research is looking into the p53 mutations and patient response to chemotherapy in small cell lung cancer.  Informal enquiries should be addressed to Dr Patricia Muller - pgt@cruk.manchester.ac.uk

RNA and Computational Biology Group - Applying High Performance Computing to the Cancer Genome   
Applications Close Thursday 13 April 2017 (2400 hrs GMT)     Interviews: Friday 28 April 2017

Applications are invited from exceptionally high calibre students – recent graduates or final year undergraduates who have, or are expected to obtain a first or upper second class honours degree and who are highly committed to pursuing a PhD in cancer research.  While a background in biology is useful, the project is computational in nature and excellent scientists from a computational background who are keen to develop a better understanding of cancer are encouraged to apply.  Informal enquiries should be addressed to Dr Crispin Miller - crispin.miller@cruk.manchester.ac.uk

For detail click here


20 ICFO International PhD Fellowship positions

ICFO is offering up to 20 PhD positions to well-qualified graduate students, who wish to obtain a doctoral degree in any of the research fields covered at ICFO. Research is carried out at ICFO.

Our PhD-program brings together top-level training and teaching for young scientists, benefiting from the extensive course offerings of local universities and focused instruction by ICFO professors, in a stimulating, international and interdisciplinary environment. PhD-students have the opportunity to take advantage of our network of excellence, consisting in partners of national and international research institutes and universities, as well as industrial partners in the field.

Our International PhD Fellowship Program welcomes applications from individuals with a degree in a field of science and engineering related to the ICFO research activities.  Fellowships will be offered across all ICFO research groups in the following research areas:

  • Biophysics & Biomedical Optics
  • Optical Sensing, Optoelectronics & Photovoltaics
  • Nonlinear Optics, Ultrafast Optics & Atto-Physics
  • Nanophotonics, Optomechanics & Nanomechanics
  • Experimental Quantum Optics & Quantum Information
  • Theoretical Nanophotonics, Quantum Optics & Quantum Information

application deadline: 26th of March, 2017

For detail click here