PhD scholarship

 PhD scholarship in Bioinformatics, Genomics and Life Science:


Update  on  October 18, 2019

PhD student in Health Data Science

The Department of Medical Informatics is looking for six PhD students to work on cutting-edge health data science topics. This research will be performed in close collaboration with the Observational Health Data Sciences and Informatics (OHDSI) initiative, which is a global, multi-stakeholder, interdisciplinary collaborative to bring out the value of health data through large-scale analytics and the EU-sponsored European Health Data and Evidence Network (EHDEN) and eTransafe projects, which develop frameworks to generate reliable real-world evidence.

The PhD students will be responsible for the development and application of novel methods and techniques on data from large Electronic Health Record databases. Research will be performed in natural language processing, feature engineering methods, deep-learning, and other advanced machine-learning methods to support personalized medicine. The PhD students will have the opportunity to develop predictive models and perform validation studies at an unprecedented global scale through the standardization of health data to the OMOP Common Data Model. Impact assessments of these new approaches on patient care are part of the research agenda.

Candidates must have a background in Biomedical Informatics, Bioinformatics, Computer Science, Data Analytics, or (Bio)statistics. Interest in data and/or text mining, machine learning, regression analysis and programming is required. Furthermore, we invite candidates who are working in the regulatory domain or are interested in applying health data science in their clinical setting, to propose research topics. These candidates preferably have a medical background.

APPLICATION DEADLINE 13/11/2019

For details click here


PhD student / Bio-informatician in cancer genetics

The Center for Medical Genetics Antwerp is a diagnostic and research institute within the University of Antwerp and the Antwerp University Hospital, comprising over 100 scientists, of which over 40 are fulltime engaged in research. The Center is looking for a PhD student / Bio-informatician in cancer genetics.

You will perform research through bio-informatical analysis of “omics” data, with a focus on next generation sequencing and methylomics. You will analyse different datasets using various bio-informatic tools, with the final goal of understanding the complex biology of cancer and evaluate the potential of these data for the development of new biomarkers for early detection and therapy response.

You are (or soon will be) a master in bio-informatics. You have strong ICT skills and you are eager to fully submerge into the world of bio-informatics. You have good experience with Linux and one or more programming languages as well as knowledge of statistical methods of analysis. Candidates with a Master degree in one of the life sciences (Biomedical sciences, Biochemistry, Bio-engineering, Biostatistics, …), with relevant interest and experience in informatics are also welcome. A general background in human genetics and cancer biology is needed. You are willing and eligible to apply for a personal PhD fellowship with the Flemish FWO (FWO.be). Therefore, it is required that you hold a master degree from a European university, and have not obtained your master diploma more than three years ago (see FWO website for detailed conditions).

To apply, send a copy of your CV including details of your relevant skills and a motivation letter by e-mail to dr. Arvid Suls before November 22, 2019.

For details click here


Posted on October 16, 2019

PhD position in Biology/ Bioinformatics

The Helmholtz Centre for Environmental Research (UFZ) with its 1,100 employees has gained an excellent reputation as an international competence centre for environmental sciences. We are part of the largest scientific organisation in Germany, the Helmholtz association. Our mission: Our research seeks to find a balance between social development and the long-term protection of our natural resources. Within the DFG-funded Research Unit “Biotic interactions, community assembly, and eco-evolutionary dynamics as drivers of long-term biodiversity–ecosystem functioning relationships – FOR 5000” we are seeking for a motivated PhD student (m/f/x).

Your tasks:

  • Sampling of soil and root-associated mycorrhiza and microbiota in the field and Ecotron units
  • Isolation and Illumina sequencing of DNA
  • Analysis of sequencing data, also in combination of data from collaborating projects
  • Quantification of mycorrhization rates by microscopy
  • Participation in training courses, workshops and conferences

Your profile:

We are looking for a highly motivated candidate holding a Diploma or M.Sc. in biology, bioinformatics, ecology or related sciences who is interested in the role of fungi-plant interactions in the relationship of biodiversity and ecosystem functioning. Applicants should be trained in sampling and analysis of microbiomes or mycorrhiza, in bioinformatics or biostatistics, and should have experience in conducting laboratory analyses. Knowledge of plant community ecology, biodiversity-ecosystem functioning experiments, field or mesocosm studies are a plus. We expect the motivation to work in an interdisciplinary team as well as the capability to work independently, in the field, laboratory and computationally.

Closing date for applications: 10.11.2019

For details click here


PhD student in the group Neuroepidemiology

The German Center for Neurodegenerative Diseases (DZNE) is a unique non-university research center which is dedicated to the subject dementia and all its areas, as well as other neurodegenerative diseases. The center compasses the full spectrum of fundamental research through population sciences to health care research. The DZNE stands for excellence in research and science management, translation of scientific results into practice, interdisciplinarity and internationalization. It is a research center within the Helmholtz Organization of German research centers. With over 1,000 employees from 55 nations, spread over 10 sites, the DZNE is one of the national and international leading research centers in its research field.

The specific focus of the project will be to investigate the putative risk factors for amyotrophic lateral sclerosis and frontotemporal dementia, and to examine if similar patterns could be obtained in terms of both the incidence and progression of these two diseases. Primary methods will include novel genetic approaches such as polygenic risk score construction, Mendelian randomization analysis, and genetic correlation analysis as well as mixed models and survival analysis techniques.

Requirements: Applicants must have a Master degree in Epidemiology, Bioinformatics, Neuroscience or equivalent and should have a strong background in quantitative data analysis in biomedicine. Prior experiences in GWAS, omics analysis, polygenetic risk score analysis, Mendelian randomization, and R/Python/Stata/SAS are highly desirable. Applicants should be fluent in English and possess good communication and team working skills.

Application deadline December 31st, 2019

For details click here


Posted on October 14, 2019

PhD position in Biology/ Bioinformatics

The Leibniz Institute for Farm Animal Biology (FBN) based in Dummerstorf near Rostock, Germany, is a foundation under public law and a member of the scientific community Gottfried-Wilhelm Leibniz. The scope of the institutewith about 300 employees is fundamental and applied research in the area of farm animal biology.

The project is the part of a collaborative project with University of Hohenheim and is funded by the German Reserch Council (DFG Forschergruppe P-Fowl). We focus on data integration to derive biological networks of host gut expression and microbiota variation related to inositol phosphates derivatives (InsPx), myo-inositol and P utilization in chicken. Co-expression networks of host-microbiome transcripts and a tissue-specific metabolic model of the InsPx metabolism will be reconstructed and investigated. Therefore Next-Generation-Sequencing (NGS) techniques and bioinformatics tools will be used.

Requirements:

  • Master’s degree, a diploma or a comparable qualification in statistics, mathematics, computer science, life sciences, biology, biochemistry, animal science and veterinary medicine.
  • Programming skills in at least one programming language (R, Matlab, SAS, Java or Perl) and basic knowledge in the fields of, biostatistics/bioinformatics and silico analysis of molecular biological/genetic data or metabolic pathways are advantageous.
  • Highly motivated team player and good knowledge of English (oral and written skills) is essential.

Reference number: 2019-32

For more detailed information contact Dr. Siriluck Wimmers(s.wimmers@fbn-dummerstorf.de).

For details click here


Two PhD scholarships in Bayesian Analysis of Childhood Asthma

Two PhD positions are available at the Section for Bioinformatics, Department of Health Technology at DTU. DTU Health Tech engages in research, education, and innovation based on technical and natural science for the healthcare sector, with expertise spanning from bioinformatics and biological modelling, across imaging and biosensor techniques, to biopharma technologies. The focus of the two PhD projects is Bayesian statistical modelling of paediatric asthma. The aim of the projects will be to integrate multiple types of data (genomic, microbiome, demographic, patient records, pathway, protein-protein interaction data, etc) in a systems biology framework to investigate the molecular mechanisms underlying the development of childhood asthma. The use of mechanistic, Bayesian models (e.g., using the probabilistic programming language Stan) will be an important tool.

Most GWAS studies focus on single nucleotide polymorphisms (SNPs) one at a time. However, the biological reality is likely to be that traits are typically influenced by the combined impact of several SNPs, each having a weak effect. An important part of the present project will be to develop methods for detecting such sets of interacting SNPs using methods from within the Bayesian, probabilistic modeling paradigm. The aim is to explore both hypothesis-free approaches as well as methods based on understanding of the investigated biological systems (e.g., basing the search for SNPs on knowledge of biological pathways or protein-protein interaction data).

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. The applicant must have strong computational skills, and a solid background in bioinformatics and machine learning. It is required that the applicant has experience both in general purpose programming languages (e.g., Python or C++) and in machine learning frameworks (such as PyTorch and TensorFlow). Experience in probabilistic programming languages (e.g., Stan or Pyro) is considered a huge plus.

Please submit your online application no later than 24 October 2019 (local time).

For details click here


Posted on October 11, 2019

PhD-candidate, Faculty of Health, Medicine and Life Sciences/ Department of BioInformatics

Rare, genetic diseases affect only a few individuals but the high number of different rare diseases make them in total an important part of health sciences - about 1 of 17 people is affected by a rare disease. Rare diseases are often caused by genetic variants especially loss of function mutations. We can study the effects of such mutations on human phenotype - health and disease. The approach we use benefits from the fact that different patients often have different mutations that do affect the same biological process. Challenges in this research are presented by the genetic background variation and life-style influences, which leads to variety in the disease presentation and problems in the identification of suitable drugs. Integrative systems biology, using pathway and network analysis approaches, is one of the ways to integrate experimental data and information from different resources in order to get a comprehensive answer.

You will evaluate how new integrative systems biology approaches, for which in part new tools will be developed, lead to better understanding, improved diagnosis and treatment of rare disease patients, and this will serve as the basis for your PhD thesis.

The successful candidate should have:

●      Demonstrable skills in bioinformatics, data sciences or systems biology;

●      Programming skills (ideally in Java) including experience with project management for software projects  (version control, issue trackers, documentation, integrated testing);

●      Training in biological sciences, especially molecular biology and genetics ideally with applications in neuroscience or metabolism;

●      Communication skills in English - written and spoken;

●      Affinity for working in an interdisciplinary and highly international environment;

●      Organisational skills and professional behaviour;

●      Readiness to relocate to (the vicinity of) Maastricht.

For details click here


PhD position in Cell Biology with a focus on Intelligent Automation

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.

We are currently looking for an ambitious, highly motivated PhD student with a good background in cell biology as well as interest in molecular biology, high-throughput screening and bioinformatics, to join the research group of Assoc. Prof. Ola Spjuth (group website: https://www.farmbio.uu.se/forskning/researchgroups/pb/). The successful candidate will join an interdisciplinary team of researchers and participate in a project to build up an intelligent, automated laboratory for cell profiling, with applications in pharmacology and toxicology.

Requirements: The highly motivated candidate should have a MSc in cell/molecular biology/biotechnology or equivalent field (at least 240 credits) and preferably previous laboratory experience.

The ideal candidate should be at least familiar with standard techniques including:

  • Cell culture models
  • Molecular biology, including western blotting, CRISPR/Cas9, cloning, transfection of shRNA and other vectors, RNA/DNA extraction, DNA fiber analysis, PCR and quantitative real-time PCR techniques
  • Cell viability, proliferation and apoptosis assays.
  • Immunofluorescence staining and immunoprecipitation techniques.
  • Fluorescence-activated cell sorting (FACS)
  • Liquid handling and automation

Reference number UFV-PA 2019/3337

Last application date 25.Oct.2019 11:59 PM CET

For details click here


Posted on October 09, 2019

PhD Scholarship in Identification of Breast Carcinogens

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 PhD project is a collaboration between DTU Food and The National Research Centre for the Working Environment (NFA) in Copenhagen.

The PhD will focus on identifying potential breast cancer carcinogens based on the ability of chemicals and solvents to inhibit PPAR-gamma receptor, leading to increased sex hormone biosynthesis. The project will include planning and execution of 1) animal experiments, 2) prioritisation of chemicals in our QSAR computer model for PPAR-gamma 3) in vitro cell-based assays using human adrenocortical carcinoma (NCI-H295R) cells and transfected human embryonic kidney (HEK293) cells. You will work in close collaboration with other researchers in and outside the group, as well as experienced animal staff.

Responsibilities and tasks

The purpose of the PhD project will be to establish and validate a three-step screening of chemicals for breast cancer carcinogens based on modulation of PPAR-gamma activity.

 
The project will cover the following tasks:
  • Induction proof-of-principle animal experiment
  • Screening of potential breast cancer carcinogens for their PPAR-gamma activity with help from our QSAR computer staff.
  • in vitro testing of chemicals identified with QSAR, for their effects in PPAR-gamma reporter cell lines and for their effect on hormone production in vitro

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 within life science.

Please submit your online application no later than 31 October 2019.

For details click here


10 Doctoral Programme Positions-Graduate School Life Science Munich

The Graduate School Life Science Munich (LSM) offers an international doctoral programme to highly motivated and academically qualified next generation researchers at one of Europe’s top Universities. LSM members are internationally recognized for their innovative research approaches and technologies, they are aiming to answer essential questions relevant to basic and applied biological and biochemical research. Within their own research group or in collaboration with a specialized research group on campus, LSM doctorates are given the opportunity to learn and command a variety of techniques. Furthermore, the graduate programme holds various workshops and seminars that strengthen and prepare doctorates for a successful career as scientists.

Available research projects cover areas from Biochemistry, Bioinformatics, Cell and Developmental Biology, Epigenetics, Genetics, Human Biology and Bioimaging, Pharmacology, and Plant Biology. All courses, lectures and seminars at the LSM are held in English. Thus, selected candidates have to be fluent in both written and spoken English. Successful students of the graduate school will be awarded a doctoral degree (Dr. rer. nat.) by the LMU after 3 to 4 years. Candidates need to prove a strong qualitative background as well as interest and ability to conduct independent research. The doctoral programme is open for students who hold either a master´s or diploma degree, as well as to exceptional candidates with a four years bachelor degree (with written thesis).

For details click here


Posted on October 07, 2019

PhD program Microbial Symbioses

The PhD program Microbial Symbioses offers new positions for dedicated and enthusiastic students interested in microbe-host interactions!

Our students have a background in microbiology, microbial ecology, evolutionary biology, bioinformatics, cell biology, plant sciences, or marine sciences. They are interested in investigating the complex interplay between microbes and their hosts in an interdisciplinary and international research environment.

Diverse research projects are available, ranging from marine symbioses to human and plant microbiomes. The deadline for the current call is December 1, 2019. Applications may be considered after the deadline if not all positions are filled.

For details click here


PhD position in Food science/ Biology

Department of Food Science (FOOD), Faculty of Science at University of Copenhagen is offering a PhD fellowship in applying electrodialsys to acid whey from 1 December 2019 or soon thereafter.

The Department of Food Science, Faculty of Science at the University of Copenhagen seeks a PhD candidate to work on a PhD project regarding microbiological characterisation of biospecimens from infants and their mothers. This PhD project is part of the project “The influence of maternal health on human breast milk composition with potential downstream effects on infant metabolism and gut colonization (MAINHEALTH)” supported by the Arla Food for Health foundation.

Job description

The position is available for a 3-year period and your key tasks as a PhD student at SCIENCE are::

  • Manage and carry through your experimentally based research project
  • Take PhD courses
  • Write scientific papers and your PhD thesis
  • Teach and disseminate your research
  • To stay at an external research institution for a few months, preferably abroad
  • Contribute to supervision of students working on aspects/projects related to your research project

Key criteria for the assessment of candidates

  • Documented, thorough experience with high throughput sequencing-based analysis of biospecimens (e.g. fecal samples, vaginal swaps etc.)
  • Documented experience with bioinformatics and data integration
  • Some experience with virome/bacteriophage characterisation will be an advantage, but not mandatory
  • The grade point average achieved

The deadline for applications is 20th October 2019, 23:59 GMT +2.

For details click here


Posted on October 04, 2019

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 MEB biostatistics comprises around 40 staff. In addition to five professors of biostatistics, it contains biostatisticians at all levels of the academic career ladder, a vibrant group of around 15 doctoral students, and a group of approximately 10 applied biostatisticians. Members of the biostatistics group conduct methodological research in areas including causal inference, surrogates, clinical trials, design and analysis of epidemiological studies, register-based research, twin and family studies, predictive modeling, image analysis, survival analysis, statistical genetics, and analyses of high-throughput data. The group collaborates within the department, nationally, and internationally on research in biostatistics and applications in areas including cancer, psychiatric disorders, aging, transfusion medicine, and HIV treatment.

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 and personal qualities 

  • The applicant should have a master’s degree in statistics or biostatistics.
  • The applicant should have previous experience in HIV research.
  • The applicant should have at least some knowledge or training in clinical trial design.
  • The applicant should have some work experience as a biostatistician in a clinical setting.
  • The applicant must be fluent in written and spoken English.
  • The applicant must have a high level of programming skill in R.

Reference number 2-4715/2019

Last application date 08.Oct.2019

For details click here


Doctoral Candidate in Microbial Physiology

Aalto University is a community of bold thinkers where science and art meet technology and business. We are committed to identifying and solving grand societal challenges and building an innovative future. Aalto has six schools with nearly 11 000 students and a staff of more than 4000, of which 400 are professors. Our campus is located in Espoo, Finland.

We are looking for a PhD Candidate that is keen to advance research in the field of: Microbial physiology, Metabolic engineering, Genetics or Electromicrobiology We design microbial pathways to convert CO2 to fuels via the archaeal reductive acetyl-CoA pathway. One project involves genetic engineering and regulation to convert CO2 and hydrogen into short-chain alkanes. The second project involves direct electron transfer via multi-heme cytochromes to reversibly interconvert alkanes to electricity, a process that mimics the anode of a methane fuel cell at cold temperatures.

Qualification

  • MSc in a suitable field, such as microbial physiology, metabolic engineering, genetics, systems biology, biophysics or biochemistry
  • Be highly committed to science and strive for excellence
  • Develop own smart ideas and think independently
  • Be able to focus on solving tough scientific problems
  • Have good written and oral communication skills in English

Skills, knowledge or interest in some of the following areas are highly appreciated:

  • Microbial pathway engineering and regulation
  • Electro(bio)chemistry
  • Metabolic modelling and thermodynamics
  • Quantification of intracellular metabolites
  • Bioinformatics and genetics

Deadline Nov. 30th 2019

For details click here


Posted on October 02, 2019

PhD positions offered by the H2020 MSCA-ITN AntiHelix to study human genome maintenance DNA helicases

We are pleased to advertise 13 PhD positions for early-stage researchers (ESRs) to begin in February/March 2020, as part of the Innovative Training Network of the European Commission entitled “DNA helicases in genome maintenance: from molecular and cellular mechanisms to specific inhibitors as potential drugs. he offered positions will all last three years and will allow all the recruited researchers to be enrolled in local PhD schools and to participate in an exciting multidisciplinary research programme that will enhance their career perspectives in both the academic and non-academic sector.

The AntiHelix consortium includes the following 9 European institutions as Beneficiaries: Consiglio Nazionale delle Ricerche, Naples, Italy; Elettra - Sincrotrone Trieste SCpA, Trieste, Italy; University of Copenhagen, Denmark; VU University of Amsterdam, Netherlands; University of Sheffield, United Kingdom; University of Duisburg-Essen, Germany; Lead Discovery Center GmbH, Dortmund, Germany; Edelris SAS, Lyon, France; Lumicks BV, Amsterdam, Netherlands.

The ESR proposed projects are:

Project 1: Investigating structure-function relationships of the DDX11 DNA helicase. Supervisor: F. M. Pisani (fm.pisani@ibp.cnr.it), Consiglio Nazionale Ricerche, Napoli, Italy. Keywords: Biochemistry; Molecular Biology; Cell Biology

Project 2: Identification of novel DDX11, FANCJ and RECQ4 interaction partners by proteomic studies. Supervisor: G. Manco (g.manco@ibp.cnr.it), Consiglio Nazionale Ricerche, Napoli, Italy. Keywords: Biochemistry; Proteomics; Biophysics

Project 3: Structure and function of the RECQ4 DNA helicase. Supervisor: L. Napolitano (luisa.napolitano@elettra.eu), Elettra - Sincrotrone Trieste SCpA, Trieste, Italy. Keywords: Biochemistry; Structural Biology; Cell biology

Project 4: Structural and biochemical analysis of Fe-S DNA helicases. Supervisor: S. Onesti (silvia.onesti@elettra.eu), Elettra - Sincrotrone Trieste SCpA, Trieste, Italy. Biochemistry; Structural Biology; Biophysics

Project 5: Investigation of the functional roles of different DNA helicases in response to replication stress. Supervisor: Y. Liu (ying@sund.ku.dk), University of Copenhagen, Denmark. Keywords: Molecular biology; Cell biology; Gene editing

Project 6: Mechanistic studies of the BLM complex in mitosis. Supervisor: I. D. Hickson (iandh@sund.ku.dk), University of Copenhagen, Denmark. Keywords: Biochemistry; Molecular biology; Cell biology

Project 7: Correlated Tweezers Fluorescence Microscopy to visualize and measure the interplay of the BLM complex with the chromatin-remodelling factor PICH on DNA. Supervisor: G. J. L. Wuite (g.j.l.wuite@vu.nl), VU University of Amsterdam, Netherlands. Keywords: Biophysics; Biochemistry; Molecular biology

Project 8: Dissecting the DNA binding and unwinding activities of the human PIF1 helicase. Supervisor: C. M. Sanders (c.m.sanders@sheffield.ac.uk), University of Sheffield, United Kingdom. Keywords: Biochemistry; Molecular biology; Cell biology

Project 9: Therapeutic validation of DNA helicases in cancer. Supervisor: I. Helfrich (iris.helfrich@uk-essen.de), University Duisburg-Essen, Germany. Keywords: Molecular Oncology; Cellular 2D/3D cancer models; Bioinformatics

Project 10: Discovery of small molecule inhibitors of human BLM and RECQ4 DNA helicases. Supervisor: B. Klebl (kathrin.klebl@lead-discovery.de), Lead Discovery Center GmbH, Dortmund, Germany. Keywords: Biochemistry; Medicinal chemistry; Drug discovery

Project 11: Discovery of small-molecule inhibitors of human PIF1 and Fe-S DNA helicases. Supervisor: J. Eickhoff (kathrin.klebl@lead-discovery.de), Lead Discovery Center GmbH, Dortmund, Germany. Keywords: Biochemistry; Medicinal chemistry; High throughput screening

Project 12: Discovery of small molecule inhibitors of human BLM, RECQ1 and PIF1 DNA helicases. Supervisor: D. Roche (didier.roche@edelris.com), Edelris SAS, Lyon, France. Keywords: Medicinal chemistry; Drug discovery; High throughput screening

Project 13: Biophysical study of DNA helicase action mechanism. Supervisor: M. de Groot (m.degroot@lumicks.com), Lumicks BV, Amsterdam, Netherlands. Keywords: Biophysics, Biochemistry; Correlative optical-tweezers fluorescence microscopy.

Eligibility criteria

Candidates must comply with the following requirements:

  • Have not been resident or have conducted main activity (studies, work, etc.) for more than 12 months within the last three years in the country where the project will take place

  • Be in the first four years of their research career (measured from the date they have obtained a Master's degree or equivalent that allows them to enrol in a PhD program)
  • Be fluent in English

Candidates are invited to send the following documents to Dr Francesca M. Pisani, Istituto di Biochimica e Biologia Cellulare - CNR, Naples, Italy (Coordinator of the AntiHelix MSCA-ITN; e-mail: antihelix.management@ibbc.cnr.it)

For details click here


Doctoral (PhD) student position in RNA-guided chromatin remodeling and DNA repair

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. 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.

Research group The position is placed in the laboratory of Marianne Farnebo, which currently includes 9 employees - 3 PhD students, 4 postdocs and a lab manager- and locates at the Department of Cell and Molecular Biology (CMB) at Karolinska Institutet. The laboratory studies the function of non-coding RNA and RNA-binding proteins in DNA repair and chromatin remodeling, and how defects in these processes contribute to cancer. A number of cutting-edge techniques required to study RNA are already up and running in Farnebo laboratory, including single-molecule RNA FISH, RNA tethering, live-cell imaging and laser-micro irradiation.

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 2-4797/2019

Last application date 27.Oct.2019

For details click here


Posted on September 30, 2019

Doctoral Grant (BOF), Artificial intelligence for bio-informatics

The Faculty of Sciences is seeking to fill a full-time (100%) vacancy in the Department of Computer Sciences for a Doctoral Grant by the University Research Fund (BOF) in the area of artificial intelligence for bio-informatics The ADREM Data Lab is an internationally renowned research group known for its contributions to the theory as well as practical applications of data sciences. Within ADREM, prof. Kris Laukens leads a biodata mining research team (circa 20 people) that studies novel bio-informatics and artificial intelligence techniques to interpret complex molecular and biomedical data. The team performs both fundamental algorithmic research and applies these novel techniques to various real-life problems in a diverse array of life science domains (including immunology, oncology, etc.).

You will study AI approaches to unravel universal patterns that drive interactions between biomolecules, essential to understand living systems and diseases. By combining big protein sequence datasets with the power of advanced AI techniques you will study the fundamental building blocks of life. Taking cues from recent advances in natural language processing, you will develop deep neural network models to learn hidden patterns in molecular sequences. You will learn computational and AI skills, as well as their application in real-world biomedical settings.

Job description

  • You prepare a doctoral thesis in the field of artificial intelligence for bio-informatics.
  • You publish scientific articles related to the research project of the assignment.
  • You contribute to teaching and research in data mining and bioinformatics in the Department of Computer Sciences, Faculty of Sciences.

Profile and requirements

  • You hold a master degree in Computer Sciences (data sciences, artificial intelligence, ...), Bio-informatics or equivalent.
  • You can submit outstanding academic results.
  • Students in the final year of their degree can also apply.
  • Foreign candidates are encouraged to apply.

Applications may only be submitted online, until the closing date October 30th 2019 and should include a copy of your CV and a cover letter.

For details click here


PhD student (m/f/d) in Metabolic Programming

Starting October 1st t 2019, the newly established Chair of Metabolic Programming of Prof. Dr. Henriette Uhlenhaut is looking for a highly motivated graduate student (m/f/d/) to obtain their PhD degree in physiological genomics.

The research activities of Prof. Dr. Henriette Uhlenhaut (Chair of Metabolic Programming at the TUM School of Life SciencesWeihenstephan) are focused on functional genomics and preclinical models. Together with the Helmholtz DiabetesCenter in Munich and the German Center for Diabetes Research (DZD), our lab combines functional genomics,proteomics, metabolomics and bioinformatics approaches with a variety of genetic in vivo and in vitro models to studygene regulatory mechanisms in health and disease. Major areas of study include nuclear hormone receptors, innate immune responses, circadian clocks and metabolic homeostasis. Hot topics are the impact of stress hormones on diet induced pathologies and aging. The Technical University of Munich (TUM) is one of Europe’s top universities. TUM is committed to excellence in research and teaching, interdisciplinary education and the active promotion of promising young scientists. Our international team is part of several larger research consortia in Munich.

Candidate profile
We are looking for an enthusiastic and ambitious candidate with an excellent Master’s degree in Molecular Genetics, Biochemistry, Biotechnology, Biology, or related life sciences. Applicants should demonstrate the following qualifications.
  • General interest in Endocrinology, Metabolism or Immunology.
  • Basic knowledge in Functional Genetics, Molecular Biology or Physiology.
  • Willingness to work with mice.
  • Eager to apply bioinformatics and statistical tools.
  • Enthusiastic and highly motivated team player with a strong sense of responsibility.
  • Excellent communication skills in spoken and written English to empower working independently in an interdisciplinary environment.
  • Flexible, scientifically adventurous, curiosity-driven minded with the talent to drive the project with original ideas.

For full consideration, applications including motivation letter, CV, certificates and two recommendation letters or references should be sent as a single document via e-mail by latest Oct 31, 2019 to bewerbung_dekanat@wzw.tum.de.

For details click here


Posted on September 27, 2019

PhD student position in Computational Biology

The department of Mathematical Sciences is a joint department between University of Gothenburg and Chalmers University of Technology located at the Chalmers campus Johanneberg. We conduct internationally successful research in a number of areas in theoretical and applied mathematics, and mathematical statistics. The department is an important partner of other sciences and industrial projects. The announced PhD position is located at the Division of Applied Mathematics and Mathematical Statistics, with several research groups in the area of biomathematics/systems biology. Gothenburg offers vibrant systems biology environment with many excellent research groups actively collaborating and organizing number of life science seminars, systems biology summer schools and workshops.

You will work in a highly dynamic research environment at the interface between mathematics and biology to address central problems of cellular ageing. Mathematical modelling and biological experiments will be closely integrated into most of the work. Ageing is a process consisting of many interacting subsystems, it is necessary to account for numerous factors simultaneously by applying large-scale modelling approaches. It is tightly coupled to metabolic processes like energy metabolism and nutrient availability.

Applicants for the position should have a strong background in applied mathematics and biotechnology. They must have obtained a master's degree or a 4-year bachelor's degree or expect to complete that degree by the start of the employment.

Closing date: October 15, 2019

For details click here


PhD Studentship - The molecular mechanisms of piRNA-guided transposon silencing (Fixed Term)

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 Hannon laboratory has a long-standing interest in small RNA biology. In recent years, the lab has focused on the study of the PIWI-interacting RNAs (piRNAs) in Drosophila melanogaster. The piRNA pathway is an RNA-based immune system that protects the germline of animals from uncontrolled transposon mobilisation, thus safeguarding genome integrity. Our lab has pioneered this field, being amongst the first describing the pathway, carrying out large-scale genomic screens to identify the main players and characterising their role within the pathway.

The ideal candidate would have a relevant undergraduate degree, a keen interest in working on this project, and would be highly motivated to drive an independent research project. A research Master's degree with six months or more of lab experience, as well as a strong background in biochemistry or cell biology would be highly desirable. The successful candidate is expected to work closely with other team members, have excellent communication skills and record keeping habits, organisational and time-management skills, and an inquisitive mind.

The closing date for applications is 15 November 2019, with interviews expected to take place in December/January.

Reference SW20806

For details click here


Posted on September 25, 2019

PhD fellowship in CRISPR bioinformatics

The Gorodkin lab (http://ivh.ku.dk/bioinformatics), Center for non-coding RNA in Technology and Health (RTH), (http://rth.dk) at Department of Veterinary and Animal Sciences (http://ivh.ku.dk/english), work broadly with biological sequence data ranging from bacterial to animal and human genomes where we develop algorithms, constructing tools and analyze data. A key theme is non-coding and structured RNAs which is also relevant for the current phd position. A PhD fellowship in CRISPR bioinformatics in the Gorodkin lab is available from November 1, 2019 or as soon as possible hereafter. We are in search of a team player who is driven by curiosity and excitement and willing to put the necessary effort into the project and thereby play a key role in obtaining successful results.

The CRISPR technology has become a key cutting tool for genome editing with all the applications that follows. However, unintended cuts elsewhere in the genome, off-targets, can have detrimental effects, result in additional and irrelevant gene activity not related to intended target and for the data analysis it can impossible to filter these effects out. Interestingly, off-targets seem most often ignored in various applications of CRISPR. In this project off-targets will systematically be addressed by developing a computational framework, with outset in an energy model recently published by the lab combined with machine and deep learning, and data generated within the project.

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 such as Bioinformatics, Computer Science or similar areas. Most importantly that you meet the technical requirements in bullet #2 below.

Other important criteria are:

  • The grade point average achieved
  • Professional qualifications relevant to the PhD project. This include (but not limited to)
    For the following criteria the level has to be at level where you are able to work independently:

    • Strong knowledge of RNA folding and RNA-RNA interaction algorithms.
    • Strong knowledge of algorithms using suffix-arrays / suffix-trees for mapping (complementary) sequences to genomes
    • Machine learning
    • All of C++ or C,  Perl or Python, shell scripting and Unix or Linux operating system

Application deadline: 13 October 2019, 23.59pm CET

For details click here


Doctoral (PhD) student position in Cancer Biology

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.

Research group Department of Microbiology, Tumor and Cell Biology (MTC) conducts research aimed to unravel mechanisms underlying the development of cancer and immune-mediated diseases as well as to develop new strategies to fight infections and cancers globally. The science at MTC includes both basic and clinically anchored research and many projects build on long-standing national and international collaborations. Key words are multidisciplinary, bridging, translational, national and international collaborations.

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.

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.*

Last application date 14.Oct.2019 11:59 PM CET

For details click here


Posted on September 23, 2019

PhD in Biosciences: Determining the cancer stem cell basis for metastatic skin cancer

Cancer is a major cause of early loss of life in many countries and is the number one cause of death in the UK. While there are many types of cancer, some characteristics are shared, so that lessons learnt by studying one form of cancer (e.g. skin cancer) can be applied more broadly. Understanding these biological concepts, for example, the basis for cancer growth and its ability to evade the host defences, will be important steps to developing new therapies that could eventually save lives.

The European Cancer Stem Cell Research Institute represents a hub for cancer research within the University. Established in 2012, the Institute has state of the art facilities for a broad array of cancer research with a common goal to improve the lives of patients with cancer. Multiple teams share an open space that allows for innovative, collaborative and integrated research approaches to flourish. The PhD offers an ambitious and motivated candidate the opportunity to carry out seminal research in the field of cancer, supported by two established PI’s, 3 post-docs and existing PhD students.

Academic criteria 2:1 or higher from undergraduate study in a relevant discipline and completed or finishing MRes. An understanding of the cancer stem cell hypothesis is essential and experience working with skin cancer and use of bioinformatics for sequencing analysis is preferable but not essential.

Application deadline 23 September 2019

For details click here


PhD position in Molecular Biology

We are looking for a PhD student in Medical Science with an orientation towards Molecular Biology and a special interest in mechanisms of epigenetic regulation by Polycomb group proteins. The position at the Department of Molecular Biology at Umeå University is temporary for four years. The successful candidate will participate in activities provided by the the Department of Molecular Biology, Epigenetic Cooperation Norrland (EpiCoN) network and Integrated Science Lab (Icelab), thus providing interaction with researchers from different research fields and access to various scientific and technical expertise.

An employed doctoral student must primarily devote his or her time to his or her own doctoral training. The PhD project work aims to answer the following questions: How Polycomb proteins are targeted to specific human genes and how epigenetic memory of Polycomb repression is maintained and transmitted when cells replicate and divide. As one pillar of the project, the doctoral student will use computer simulations to build a realistic model of histone H3 Lysine 27 methylation by Polycomb complexes.

Qualifications: The successful candidate should have basic knowledge of standard molecular cloning techniques and have documented programming skills in python, java script and R. Expertise with standard software to process and analyse next generation DNA and RNA sequencing data is also required. We expect the candidate to be familiar with principals of Monte-Carlo simulation and have up to date knowledge of current literature in the Polycomb field. You need to be fluent in spoken and written English, which will be evaluated by the postgraduate studies board of the department.

Registration number AN 2.2.1-1369-19

Apply before 2019-10-08

For details click here


Posted on September 20, 2019

PhD Student - Systems Biology and Design of Microbial Communities

The Discovery and Cultures Development functions at Chr. Hansen’s R&D invite qualified candidates to apply for a PhD student position in the area of model-guided design of microbial communities. The project is partially funded by Innovation Fund Denmark (Innovationsfonden) and is carried out in collaboration with The Novo Nordisk Foundation Center for Biosustainability (CfB) at the Technical University of Denmark (DTU). The candidate will be enrolled for PhD education at DTU for a period of 3 years. The workplace for the PhD will be both at Chr. Hansen in Hørsholm, Denmark (~60%) and DTU in Lyngby, Denmark (~40%).

Modern fermentation-based food production mostly employs commercial starter cultures that are produced in ton quantities in industrial-scale bioreactors. These cultures seldom contain single strains, but rather comprise a consortium of live microorganisms (bacteria, yeast and/or mold). This industrial PhD project aims to develop a combined computational and experimental workflow for the rational design of microbial communities for mixed culture fermentations.

You hold a MSc degree in Systems Biology, Biochemical Engineering, Biotechnology or similar field, combined with a research-oriented mindset. In addition, you have:

  • In-depth understanding of microbial physiology and metabolism
  • Hands-on experience with lab-scale fermentations
  • Advanced skills in Python, Matlab and/or R
  • Experience in omics data analysis and/or metabolic modelling is a plus
  • Excellent oral and written communication skills in English
  • Ability to work in a dynamic, multicultural and interdisciplinary environment

Deadline for applications is October 13, 2019. We advise you to submit your application as soon as possible since we will be processing incoming applications continually.

For details click here


Doctoral (PhD) student position in vaccine immunology (KID)

The Department of Medicine, Solna, is one of the largest departments at Karolinska Institutet. The department consists of several divisions that are separated into different research groups. The core activities of the department are research, doctoral education and undergraduate education for medical and biomedical students. The research has three main profiles: allergy, cardiovascular medicine and inflammatory diseases.

The Division for Immunology and Allergy at the Department of Medicine, Solna performs research on different aspect of allergy, immunology, and autoimmune diseases. The research group where the announced position will be placed is headed by Professor Karin Loré. The group is one of 5 independent groups active at the Division of Immunology and Allergy. Our research group is studying the immune mechanisms of vaccination. One focus in our group is how the innate immune system is activated by different vaccine platforms. Another focus is on how adaptive immune responses in particular antibody immunity can be enhanced by new vaccine technologies.

The doctoral student project and the duties of the doctoral student The project aims at studying the early immune processes after administration of mRNA vaccines. The project also has a special focus on the development of vaccine-specific B cell responses and how the quality of antibodies induced by mRNA vaccines differs from conventional licensed vaccines. The studies will include work with primary immune cells using several approaches in cellular and molecular immunology and cell biology, as well as studies on animal and patient specimens.

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 26.Sep.2019

For details click here


Posted on September 18, 2019

PhD Positions at International Max Planck Research School IMPRS-IEM

The International Max Planck Research School of Immunobiology, Epigenetics, and Metabolism (IMPRS-IEM) is looking for talented and motivated students with a passion for science, aspiring to work towards a PhD in the fields of Immunobiology, Epigenetics, Cell Biology, Biochemistry, Metabolism, Functional Genomics, Bioinformatics and Proteomics

The IMPRS-IEM PhD program is organized by the Max Planck Institute of Immunobiology and Epigenetics and the University of Freiburg. Our scientists are internationally renowned experts in their fields and you will have a chance to profit from their expertise. You will also have an opportunity to interact with high-profile international speakers hosted by our faculty and build up your scientific network by attending local and international conferences.

Qualifications

  • MSc, MRes, Diploma or an equivalent degree in Biology, Biomedicine, Chemistry or related sciences, to be obtained latest by the start of the term in May 2020
  • Practical experience in the lab working on scientific projects
  • Excellent English language skills and the desire to work in a dynamic international team

APPLICATION DEADLINE 04/11/2019 12:00 - Europe/Brussels

For details click here


PhD position in Gene Regulation and Stem-Cell Research

We are recruiting a student for doctoral education. A doctoral education (PhD) 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 research group of Björn Reinius (https://www.reiniuslab.com) is part of the Division of Biomaterials (https://ki.se/en/mbb/research-division-of-biomaterials ) at the Department for Medical Biochemistry and Biophysics (https://ki.se/en/mbb). The Division of Biomaterials is located at the newly built Biomedicum research laboratory (https://ki.se/en/staff/biomedicum) at the Solna campus of Karolinska Institutet, Stockholm, Sweden. The group uses a multi-disciplinary approach integrating methods development for RNA/DNA sequencing (particularly aimed at the single-cell resolution), bioinformatics, molecular cell biology, cell-culture and animal models, to characterize and understand the mechanisms of gene regulation in mammals. A special focus of the lab is X-chromosome inactivation, and more recently also X-chromosome hyperactivation (Nature Structural and Molecular Biology 2019, see lab homepage).

Educational outcome and responsibilities
The successful applicant will acquire basic as well as specialized knowledge and understanding in gene regulation, chromatin states, RNA biology, embryonic development and stem-cell biology. The work implies to apply, master and develop research methodologies in genomics, transcriptomics, next generation sequencing and bioinformatics, in which the group is specialized. Examples of skills that will be cultivated include state-of-the-art molecular biology experimentation (emphasis on high-throughput sequencing and single-cell omics), cell culturing (stem cells in particular), research animal science, and bioinformatics (emphasis on high-throughput RNA/DNA sequencing data analysis).

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

Reference number 2-4679/2019

For details click here


Posted on September 16, 2019

PhD student – Computational Cancer Biology

We are recruiting a PhD candidate looking to pursue a career in computational cancer biology. Our group (https://science.ccri.at/research/research-areas/integrative-analysis) at St. Anna Children’s Cancer Research Institute (CCRI) strives to understand cellular development in cancer. Our projects center around two core themes:

As a PhD student, you will:
• Join an exciting, multi-disciplinary environment with lots of support for your personal and professional development from your supervisor, team, and peers.
• Analyze different types of biomolecular data from childhood cancers, including single-cell RNA-sequencing, and epigenome analysis (ATAC-seq, ChIP-seq, bisulfite sequencing).
• Write analysis scripts in R or Python. You will survey and try out different software packages, or may invent and implement new algorithms to achieve your goals.
• Use and customize conventional or deep machine learning models trained on public data collections and apply them to your data.

Your qualifications:
◦ Master’s degree or equivalent (including an extended thesis project) in computer science, bioinformatics, statistics, applied mathematics, molecular biology, or another relevant subject.
◦ Essential: Good programming / scripting skills in R and/or Python); Pragmatic statistics proficiency and sound logic. Experience with Unix environments.
◦ Desirable: Experience with bioinformatics or machine learning. Foundations of molecular biology.
All applications received before November 4th, 2019, will be considered.

For details click here


PhD-position (3 years), Centre for Cancer Biomarkers (CCBIO)

At the Norwegian Centre of Excellence, Centre for Cancer Biomarkers CCBIO at the Department of Clinical Medicine, University of Bergen, a full-time (100%) temporary PhD-position is available for a period of three (3) years. The position is part of the project “Exploring age-related breast cancer biology” (CCBIO Program 2), funded by the University of Bergen.

By this project, we aim to identify biomarkers with clinical relevance, explaining some of the increased tumor aggressiveness seen in breast cancer of the young, with potential for improving individualized treatment and outcome. Integrated analyses of genetic, transcriptomic and proteomic data, and other tissue analyses, including morphologic measures, are central approaches.

Qualifications and personal qualities:

  • the applicant must hold a master`s degree or equivalent in medicine or a relevant biomedical field
  • experience from DNA sequencing by Sanger method and/or next-generation sequencing in formalin-fixed paraffin-embedded human cancer tissue is highly desirable
  • experience from mRNA expression analyses in formalin-fixed paraffin-embedded tissue is desirable
  • experience from lab method development is desirable
  • experience with histopathologic methods like morphologic evaluation and immunohistochemistry will be considered as positive
  • experience from bioinformatics analyses related to large-scale mRNA, DNA, methylation data will be considered as positive
  • experience from relevant research projects will be considered as positive
  • the candidate should be able to work independently and in a structured manner, have the ability to cooperate with others, and be highly motivated for a PhD project
  • the applicant must be fluent in oral and written English, see language qualifications

Deadline 6th October 2019

For details click here


Posted on September 13, 2019

15 PhD positions in Quantitative Biology

The University of Lausanne is a research and higher education institution composed of seven faculties, here approximately 15,000 students and nearly 5,000 professors, researchers and staff work and study. Ideally situated along the lake of Geneva, near Lausanne city center, its campus brings together over 120 nationalities. UNIL’s Faculty of Biology and Medicine has recently launched a doctoral program entitled “Quantitative Biology”. Fifteen research groups are recruiting PhD students, covering areas as diverse as synthetic biology, plant science, cancer genomics, microbiology, molecular biology, molecular evolution, neuroscience, biological imaging, and computational biology.

Your qualifications:

We are accepting applications from talented and enthusiastic candidates who are interested in a dynamic, well-supported lab at a top research institution. Candidates need to finish a Master’s degree in a relevant area before the startdate of their doctoral studies.

We are looking for three main types of PhD students:

  • -Students with a life science degree, interested in working in an experimental lab, but with a high degree of motivation to learn fundamentals of computational biology, and to develop quantitative skills to analyze data more effectively
  • -Students with a life science degree interested in working in a dry computational lab, keen to deepen their quantitative skills and broaden their horizon in terms of experimental and computational techniques
  • -Students with non-biological background (e.g. computer science, maths, physics), who are highly motivated to transition to Life Sciences

A high level of written and spoken English proficiency is required, since most scientific activities are conducted in English.

Deadline: 15.10.2019

For details click here


PhD student in Molecular Plant Physiology

Umeå University is dedicated to providing creative environments for learning and work. We offer a wide variety of courses and programmes, world leading research, and excellent innovation and collaboration opportunities. More than 4 300 employees and 33 000 students have already chosen Umeå University. We welcome your application! Umeå Plant Science Centre (UPSC) is one of the strongest research environments for basic plant research in Europe. Research at UPSC covers a wide range of disciplines in plant biology including ecology, genetics, physiology, biochemistry, cell biology and molecular biology (see www.upsc.se). Our common goal is to understand the plants ability to adapt and acclimate to a changing world. A PhD student position is open at the Department of Plant Physiology, which is part of Umeå Plant Science Centre. We are looking for a highly motivated PhD student to work within the project “Understanding the regulation of energy metabolism” in Johannes Hanson’s research group at UPSC. Application is open until 1 November 2019.

Qualifications: 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 overseas, or equivalent qualifications. To fulfil the entry requirements the successful candidate also must have completed 90 ECTS credits with relevance to biology. Out of this, at least 15 ECTS credits has to be in a subject closely related to the research topic of the graduate program as well as an independent project work of at least 15 ECTS credits in an area relevant for the project. Experience with plants as experimental system or cell cultures is an advantage. We are looking for highly motivated PhD candidates eager to learn and willing to individually develop the project in cooperation with the research group. Experience the R statistical programming language and working within a team of international collaborators would also be an advantage.

Applications should be submitted via the University e-recruitment system (see link below). We look very much forward to receiving your application no later than 1 November 2019.

Reference number AN 2.2.1-1308-19

For details click here


Posted on September 11, 2019

PhD fellowship in Discovery and Characterization of Non-metabolite Ligands

The Center was established in 2010 through a generous, unrestricted grant from the Novo Nordisk Foundation. The vision of the Center is to strengthen interdisciplinary research that transforms our basic understanding of the mechanisms of metabolic health and disease, and to accelerate this knowledge toward new prevention and treatment strategies. The Center has around 200 employees from all over the world. Its employees moved into new laboratories, offices and meeting rooms in the Maersk Tower in summer 2017. In 2018, the Center obtained new strategic funding from the Novo Nordisk Foundation to further expand and establish/develop five enabling biology and technology platforms in support of the new research strategy. You can read more about us at http://cbmr.ku.dk.

Metabolites such as lactate and ketone bodies function as highly tissue and cell exchangeable metabolites, which function not only as classical metabolites energy sources and metabolic building blocks, but they also have important functions as extracellular signaling molecules, which are sensed by GPR81 (HCAR1) and GPR109A (HCAR2) respectively. These metabolite sensors are particularly highly expressed in adipose tissue, but also in many other cells of the body. In order to characterize and understand the physiological role of these metabolites as signaling molecules versus classical metabolites it is mandatory to have access to synthetic, non-metabolite ligands which mimic or block the function of the specific metabolite receptors.

Key criteria for the assessment of candidates

Applicants must have qualifications corresponding to a master’s degree related to the subject area of the project e.g. molecular biomedicine, biochemistry, cell biology, molecular biology, etc. and have experience in working with structure-based computational chemistry.

Application deadline: September 22, 2019, 23.59 p.m. CET.

For details click here


PhD in Multi-Cellular Systems Biology

Most biological tissues consist of many different cell types and are highly organized. The corresponding spatio-temporal patterns are relevant in many biological and biomedical processes including tissue homeostasis, viral infection or tumor development, and can be studied with imaging techniques, such as light and fluorescence microscopy. Biomedical imaging data provides quantitative information about biological systems, however, mechanisms causing spatial patterning and causalities often remain elusive. To close this gap, multi-scale computational modelling can be employed.

The goal of this project is to develop a computational pipeline for the analysis of tissue dynamics. The research project with focus on model development and parameterization. The project is part of the collaborative research project FitMultiCell in which a novel pipeline for the model-based analysis of imaging data is to be established. The methods are based on some of our recent work on multi-scale modelling (Jagielle et al., Cell Syst., 2017; Klinger et al., Bioinf., 2018). Applications will focus on the modelling of virus transmission modes in biological tissues. Knowledge about transmission modes will facilitate the design of more effective anti-viral treatments.

Your profile:

  • Master degree in computer science, engineering, mathematics, physics or equivalent
  • Background in computational modeling, statistical inference or machine learning
  • Programming experience (preferably Python and/or C++)
  • Background in HPC
  • Proficiency in written and spoken English
  • Passion for science and scientific work

The deadline for the application round is October 31, 2019.

Application documents (cover letter, CV, certificates, two reference letters) should be submitted as soon as possible as a single PDF file via email. Contact: Prof. Dr. Jan Hasenauer, jan.hasenauer@uni-bonn.de

For details click here


Posted on September 09, 2019

Computational PhD Position to Investigate Transcriptional Regulation in Embryonic Stem Cells Using Single-cell Genomics

Applications are invited for a three-year PhD position in areas of transcriptional regulation, single-cell genomics, stem cell and systems biology at the Functional Genomics and Metabolism Unit, Department of Biochemistry and Molecular Biology, University of Southern Denmark (SDU). You will be part of Natarajan Lab investigating transcriptional regulation in embryonic stem cells, using state-of-art bulk and single-cell methods. The PhD student will analyze large-scale single-cell transcriptomics and epigenomics data from different stages of embryonic development and adult tissues (both mouse and human). The project aims to identify and characterize novel cell cycle and cell-state regulators from single-cell genomics data, for in vivo validation. The candidate is expected to analyze a variety of bulk and single-cell functional genomics data (RNA-seq, ATAC-seq, ChIP-seq etc. and multi-omics data) and perform integrative analysis.

Qualifications: 
• Candidates must hold a Master’s degree in Bioinformatics, Computational Biology, Omics or equivalent field. Candidates with a degree in Biochemistry, Molecular Biology or relevant fields would be also considered, if they can demonstrate strong technical and computational competence.
• Strong expertise and competence in programming (Python, R, machine learning).
• Experience in analyzing bulk/single-cell genomics data and applied statistics.
• We expect the applicants to be ambitious and independent, while collaboratively working within interdisciplinary environment.
• The applicant must have good organization and communication skills with proficiency in written and spoken English.

Application deadline: 20 September 2019.

For details click here


PhD Candidate Cancer Immunotherapy

In our group, we aim to understand the molecular and cellular requirements for optimal anti-tumor T cell responses. Your project concerns delineating key signaling pathways for optimal function in T cells and dendritic cells in vivo in mouse models, and matching mouse and human cellular systems in vitro. We collaborate with the ‘clinic’, and we aim to translate immunotherapy-assisted vaccination strategies to application in cancer patients. Techniques include: in vivo mouse work, flow cytometric and functional analyses of immune cells, genome-wide transcriptomic and epigenetic analyses and associated bioinformatics, and molecular biology including CRISPR/Cas9-mediated gene editing.

We are looking for an enthusiastic and ambitious PhD student, with a university master’s degree and a background in immunology and cell biology. You have affinity with mouse studies and a motivation to understand biological systems at the molecular level. ‘Article 9’ competence is advantageous. Fluency in spoken and written English is a requirement.

For details click here


Posted on September 06, 2019

PhD Scholarship - Systems immunology and multi-omics approaches to understand protective immunity to human malaria

The Australian Institute of Tropical Health and Medicine (AITHM) at James Cook University (Cairns) is a cross-disciplinary research institute comprised of a broad range of researchers including bioinformaticians, systems biologists, immunologists, molecular biologists, and chemists. The scope of research encompasses basic science through to clinical translation and impact.

We invite applications for a PhD position focused on identifying human host factors that predict immune control of malaria. The project will utilise systems-based immunology and multi-omics approaches to profile the host immune response in controlled infection models of malaria at molecular, cellular, transcriptome and proteome-wide scale. The overall aim will be to develop and apply computational/biostatistical approaches, including network theory and machine learning, which integrate genomics, proteomics, transcriptomics and molecular immunology to improve our understanding of the host-parasite relationship and predict immune responsiveness and parasite control. Molecular signatures of immunity to malaria will inform the development of vaccines, immunotherapies or diagnostic biomarkers.

Methodologies:
Bioinformatics, Machine Learning, Immunology, Systems Immunology, Systems Biology, Genomics/Proteomics/Transcriptomics, Molecular and Cell Biology, Statistics

Eligibility:
Entry: BSc Honours Class I (or equivalent via outstanding record of professional or research achievements)
Experience/Background: Experience with programming languages, mathematics, statistics and/or background in immunology and molecular sciences, with an interest in integrating the fields of immunology and bioinformatics. Excellent computer, communication, and organisational skills are required. Forward thinking, innovation and creativity are encouraged.

Closing date: 13th Sept 2019

For details click here


PhD Positions (f/m/d) - Immunobiology, Epigenetics, and Metabolism

The IMPRS-IEM PhD program is organized by the Max Planck Institute of Immunobiology and Epigenetics and the University of Freiburg. Our scientists are internationally renowned experts in their fields and you will have a chance to profit from their expertise. You will also have an opportunity to interact with high-profile international speakers hosted by our faculty and build up your scientific network by attending local and international conferences.

PhD Graduate Program in Immunobiology, Epigenetics, and Metabolism at the International Max Planck Research School of Immunobiology, Epigenetics, and Metabolism (IMPRS-IEM). The International Max Planck Research School of Immunobiology, Epigenetics, and Metabolism (IMPRS-IEM) is looking for talented and motivated students with a passion for science, aspiring to work towards a PhD in the fields of Immunobiology, Epigenetics, Cell Biology, Biochemistry, Metabolism, Functional Genomics, Bioinformatics and Proteomics.

Requirements:

  • MSc, MRes, Diploma or an equivalent degree in Biology, Biomedicine, Chemistry or related sciences, to be obtained latest by the start of the fall term in September 2019
  • Practical experience in the lab working on scientific projects
  • Excellent English language skills and the desire to work in a dynamic international team

Application deadline: 04 November 2019

For details click here


Posted on September 04, 2019

12 fully funded PhD positions

The Cologne Graduate School of Ageing Research (CGA) in Germany is a joint venture of the University of Cologne Excellence Cluster on Stress Responses in Aging-Associated Diseases (CECAD), the University Hospital Cologne, the Max Planck Institute for Biology of Ageing and the Max Planck Institute for Metabolism Research. Cologne has emerged as a leading global research cluster with a stellar constellation of institutes and scientists dedicated to ageing research in Life Sciences.

We offer up to 12 fully funded Ph.D. positions to highly motivated and talented students. The structured Ph.D. training programme within a cutting-edge research environment will start on an individual basis between July 1 and October 1, 2020. The initial contract is limited to three years. Payment is based on the German TV-L E13 scale, 65% if terms and conditions under collective bargaining law are fulfilled or on an equivalently remunerated Ph.D. support contract of the Max Planck Society.

We offer

  • An outstanding international research environment at the most prestigious ageing research cluster in Europe
  • Excellent infrastructure for training and research by internationally recognized scientists in facilities with state-of-the-art technologies
  • Ph.D. projects that can be carried out in up to 56 participating research groups of the above mentioned institutes
  • An interdisciplinary and structured Ph.D. programme in the vibrant city of Cologne, Germany, completely conducted in English

We are looking for

  • Highly qualified and motivated students holding a M.Sc. or equivalent degree in Cell/Molecular Biology, Biochemistry, Genetics, Biophysics, Bioinformatics, Translational Medicine or a related field
  • A new generation of biomedical scientists who are eager to make fundamental scientific discoveries in the basic biology of ageing and may translate them into improvements in health and life for people as they grow older

Application deadline: November 17, 2019

For details click here


FMI International MD-PhD Program

The Friedrich Miescher Institute for Biomedical Research (FMI) offers research-oriented medical students and physicians the opportunity to carry out cutting-edge biomedical research in a stimulating, highly international and collaborative atmosphere. Affiliated with the Novartis Institutes for BioMedical Research and the University of Basel, the FMI brings together the excellence of FMI PhD training, the distinction of the Basel Medical School and a privileged relationship with the researchers of a major pharmaceutical company. It provides interdisciplinary training in basic research and access to cutting-edge technologies such as advanced microscopy, genomics, proteomics, protein structure and bioinformatics, among others.

In the FMI International MD-PhD program, medical doctors with an interest in fundamental scientific research work together with internationally recognized scientists in the fields of epigenetics, neurobiology, and quantitative biology, developing a research project with their group leader. A wide range of theoretical and practical courses are offered at both the FMI and the University of Basel. Selected candidates receive fellowships with social benefits and funds to participate in scientific meeting. After completion of their research, submission of a written thesis and successful thesis defense, candidates are awarded a PhD degree from the University of Basel.

Eligibility criteria: Students applying to the program must hold, or anticipate to receive before their enrollment, a university degree that would qualify them to enter formal clinical training / residency (e.g. a diploma in medicine or an approbation). They also should have some laboratory research experience and have done an experimental Master/Diploma thesis, which must be approved by the University of Basel.

The application deadline for the 2019 Fall Call is November 15.

For details click here


Posted on September 02, 2019

Doctoral (PhD) student position in Molecular Epidemiology and Omics of the Frailty Syndrome

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.

The PhD student will become a member of the Aging research group at MEB. The Aging group consists of four research groups led by Assistant professor Juulia Jylhävä, Associate professor Sara Hägg, Senior Professor Nancy Pedersen and Professor Kristina Johnell, respectively. The four research groups collaborate closely together and have common weekly group meetings. Researchers in the Aging group work widely with different topics of aging and aging diseases, such as frailty, cardiovascular disease, dementia and Parkinson’s disease. The main supervisor for this PhD position is Assistant professor Juulia Jylhävä, whose group focuses on the molecular epidemiology of frailty and aging biomarkers.

Area of responsibilities/description of the work Applications are invited for a PhD research training position to work on aging-related frailty syndrome, focusing on the genetics, epigenetics, metabolomics and circulatory biomarkers underlying the disease. The work includes epidemiological and omics approaches as well as quantitative genetics (twin modeling). The applicant must have a strong interest in aging and aging-related disease, and aptitude to learn multiple methods within the different areas in the project. The PhD student will be part of the Doctoral programme in Epidemiology at KI that includes courses into epidemiology and biostatistics.

Skills and personal qualities

  • The applicant should have a master’s degree in biomedical or health sciences, epidemiology, gerontology, genetics, bioinformatics, biostatistics, statistics or related discipline, and have a strong interest in aging and aging-related disease.
  • The applicant should have at least some knowledge or training in genetics and epidemiology
  • Programming skills in R is considered a strong merit.
  • Fluency in written and spoken English is required.
  • The applicant should be able to work well in a team, as well as having the ability to work independently.

Reference number 2-4345/2019

Last application date 30.Sep.2019 11:59 PM CET

For details click here


PhD student in Biochemistry especially Bioinformatics

The Department of Biochemistry and Biophysics is mainly located with the other Departments of Chemistry and Life Sciences in the Arrhenius Laboratories for Natural Sciences, which are situated in the nortern part of the University Campus at Frescati. Presently more than 200 people are working at the department, of which around 80 are PhD students, engaged in internationally highly recognized research covering a broad range of subjects. The research projects span across a broad range of topics covering various aspects of structure and function of biological systems.

Your PhD studies will be in the Biochemistry especially Bioinformatics program, specifically within the project: Use of deep learning to predict protein structures. Deep learning is a branch of machine learning based on a set of algorithms that attempt to model high-level abstractions in data by using model architectures, with complex structures or otherwise, composed of multiple non-linear transformations. The use of deep learning have revolutionised the machine learning community, but so far has only been used in a few biological applications.

In order to meet the specific entry requirements, for acceptance in the Biochemistry, especially Bioinformatics, program the applicant must have passed courses within the first and second cycles of at least 90 credits in either, a) Chemistry/Molecular Biology/Biotechnology, or b) Computer Science/Mathematics/Physics and at the second cycle level, 60 credits in Life Science, Computer Science Mathematics, Physics or Bioinformatics including a 30 credit Degree Project (thesis).

Ref. No. SU FV-2874-19

Closing date: 24/09/2019

For details click here


Posted on August 30, 2019

PhD position, Microbiome structure of warmed grasslands

The Plants and Ecosystems Research group (PLECO) of the Department of Biology, Faculty of Science offers a vacancy for a full-time PhD position, Microbiome structure of warmed grasslands

A position is vacant for a researcher (Ph.D.-scholarship) to investigate the microbial community responses of warmed grasslands in subarctic Iceland to evaluate and predict responses to climate change. Your PhD focuses on the determination of the soil microbiome through time, and how it is associated to root-mediated plant responses to temperature. You will thus develop a detailed seasonal microbiome map, linked to the presence of plant roots, soil temperature and plant dynamics. As part of Innovative Training Network (ITN) FutureArctic, data will be linked to the multitude of environmental variables assessed in the project and will be compared to modelling predictions performed by other PhD students.

Profile and requirements

  • You are an enthusiastic and motivated student with a strong interest in Microbial Ecology, who likes working in the field and in the lab, as well as bioinformatics and data analysis.
  • You have good organizational, writing and presentation skills and should be able to work well both independently and in a team environment.
  • You must have an ability to understand and express yourself in both written and spoken English to a level that is sufficiently high to derive the full benefit from the network training.

Candidates can apply until September 20th, 2019. Student graduating in September can also apply.

For details  click here


PhD student position in cellular ion channel research

ASICs are neuronal ion channels involved in pain sensation, fear behavior, and neurodegeneration after ischemia (for review see Wemmie JA et al., Nat Rev Neurosci 14: 461-471, 2013; Kellenberger S and Schild L, Pharmacol Rev 67: 1-35, 2015).

In our laboratory we try to understand the molecular mechanisms by which protons activate the acid-sensing ion channels (ASICs), and how other factors than the pH contribute to the control of ASIC activity. In the particular project for which the PhD student is hired, she/he will investigate activation and modulatory mechanisms of ASICs in the cellular context. In this work, the PhD student will use approaches of electrophysiology, cell biology and biochemistry to study ASICs in cellular expression systems and in neurons.

We are looking for a talented and motivated doctoral student. Applicants should hold a Master or equivalent academic degree that is acceptable for admission as a PhD student in one of the doctoral schools at the Faculty of Biology and Medicine of the University of Lausanne (www.unil.ch/ecoledoctoralefbm). Experience in electrophysiology, molecular biology, cell biology and animal studies is welcome and will be an advantage.

For details click here


Posted on August 28, 2019

Doctoral (PhD) student in computational cancer genomics using liquid biopsies

The Systems Biology of Drug Resistance in Cancer research group https://www.helsinki.fi/en/researchgroups/systems-biology-of-drug-resist... invites applications for a position for Doctoral (PhD) student in computational cancer genomics using liquid biopsies starting preferably in the fall 2019. You will work in the project “Computational methods to identify clinically actionable alterations from liquid biopsies in chemotherapy resistant ovarian cancer” funded by the Academy of Finland until 31.8.2023.

You will develop novel state-of-the-art methodology and analysis approaches to identify clinically applicable information from cancer patients' liquid biopsies such as circulating tumor DNA (ctDNA). Continuous series of blood samples provide easy access tumor mutation status. On-line genetic profiling enables gathering processes of tumor evolution reasons for chemoresistance which eventually enables early detection of relapse and assigning the best treatments individually for each patient.

You have
-Good computational skills, such as programming with R, Python or similar.
-Basic knowledge on biology and/or genetics.
-Experience in computational genomics or molecular cancer research will be an asset.
-Enthusiastic attitude towards science and good teamwork skills.
-Fluent written and spoken English.
-Master’s degree (or soon to graduate)

Apply at latest 20.9.2019

For details click here


Functional characterisation of neurocognitive disorder genes and therapies using cellular models PhD Scholarship

This project will examine molecular mechanisms of disease in neurocognitive disorders, with a focus on tractable target genes and proteins (receptors, ion channels, signalling pathways). will design overall strategies to allow for pharmacological testing in molecular and cellular models with a view to future clinical testing with pharmacological endpoints, as well as selecting the most interesting compounds relevant to canonical NCD pathways.

Neurocognitive Disorders (NCDs) are one of the largest unmet challenges in health care, due to their lifelong nature, high management costs, prevalence and frequent recurrence within families. The development of effective therapies has been hampered by the heterogeneity in the underlying genetic aetiologies, and hence biology, of NCD. A dynamic NHMRC-funded Centre of Research Excellence in Neurocognitive Disorders (CRE-NCD) has been established to transform the diagnosis and characterization of NCD through the application of genomic technologies, including whole exome sequencing (WES) and whole genome sequencing (WGS).

Eligibility

  • Must be a Domestic student
  • Be accepted into a Higher Degrees by Research program at the University of the Sunshine Coast
  • Not have an equivalent qualification to the one for which they are currently applying
  • Have a First-Class Bachelor Honours Degree, or show equivalent level of achievement with other academic qualifications or professional research experience

For details click here


Posted on August 26, 2019

EU ITN PhD-student position in DNA Nanotechnology

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. This position at the Karolinska Institute in Stockholm are opened to recruit Early Stage Researchers (ESRs) for the Horizon 2020, Marie Curie funded network DNA Robotics. (https://dna-robotics.eu/). To be eligible, applicants must be ready to start their position before the end of 2018.

We are looking for a young, innovative and highly motivated student that is prepared to work hard to ultimately obtain a PhD in the field of DNA nanotechnology. Applicants should have an interest in building molecular machines at the smallest possible scale using self-assembly. Since a lot of the research goals in the group are focused on tools for biology and applications of DNA nanotechnology, applicants should also have an interest in fundamental molecular and cellular biology.

A) 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.*

B) Specific eligibility requirement

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

  • Show proficiency in English equivalent to the course English B/English 6 at Swedish upper secondary school.

Reference number 2-4271/2019

Last application date 06.Sep.2019 11:59 PM CET

For details click here


PhD student in Molecular mechanisms of tumorigenesis

The Chien Lab is looking for a self-motivated PhD student with a strong interest in working in a multidisciplinary lab. The candidate will apply the technologies developed in Dr. Chien's group, including advanced imaging and single cell sequencing analysis, to patient-derived primary cultures to investigate molecular mechanisms of tumorigenesis. The candidate will also develop 2D and 3D organoid primary cultures and apply genetic engineering methods (i.e., CRISPR-Cas9) to study the effect of target genes in cancer development.

The successful candidate preferentially has a background in Cancer Biology, Biotechnology, Systems Biology and/or Bioinformatics. The candidate will interact with a diverse group of faculty in optics, bioengineering, biomedical and cell biology, and will be able to collaborate with leading laboratories at Erasmus MC, The CancerGenomiCs.nl consortium, The Oncode Institute and Delft University of Technology.

The successful candidate has a BSc or MSc in a relevant discipline (such as Biomedical Research, Biotechnology, System Biology, Bioinformatics) with a record that reflects individual accomplishment. A strong command of scientific English in speech and writing is essential. Experience in Bioinformatics is a plus!

For more information about this position click here , please contact Dr. Miao-Ping Chien, e-mail: m.p.chien@erasmusmc.nl.


Posted on August 23, 2019

PhD Studentship - Systems biology of the motif-mediated cell cycle interactome

The Institute of Cancer Research, London, is one of the world’s most influential cancer research institutes, with an outstanding record of achievement dating back more than 100 years. We provided the first convincing evidence that DNA damage is the basic cause of cancer, laying the foundation for the now universally accepted idea that cancer is a genetic disease. Today, The Institute of Cancer Research (ICR) leads the world at isolating cancer-related genes and discovering new targeted drugs for personalised cancer treatment.

This project will be based in the Division of Cancer Biology and supervised by Dr Norman Davey as part of the Short linear Motifs team. Ideally, the successful candidate will be starting in November 2019.

Applications are invited from talented graduates or final year undergraduates who hold or expect to gain a first or upper second class honours degree or equivalent, or a Masters degree, in computer science or similar This studentship will be suitable for a student with a background in statistics, programming or bioinformatics The successful candidate will undertake a four-year research training programme under the guidance of a supervisory team of our world-class researchers. Students receive an annual stipend, currently £21,000 per annum, as well as having fees and project costs paid for the four-year duration. The ICR is a college of the University of London and awards degrees of the University.

Closing Date 15/09/2019, 23:55

For details click here


PhD in machine learning for pangenomics

The PhD will take place in the LBBE, on the Claude Bernard Lyon I university at Villeurbanne. The Biometry and Evolutionary Biology laboratory (LBBE) is part of CNRS (Unit 5558) and University of Lyon (University Claude Bernard Lyon 1). It includes about 200 people, ant its research topics encompass various aspects of Biometry (or Biostatistics) and Evolutionary Biology. Research themes in the lab are clustered around a methodology (emphasizing the importance of modeling and informatics in life and medical sciences), and an evolutionary perspective, regardless of the investigation level (from molecules to communities). This double angle results in a synergy between methodological developments and biological questions.

The PhD will take place in the "High dimensional statistics for genomics" group. The research of this group focuses on statistics for genomics data. Its originality is to conduct this type of research within a biology lab, whereas most interaction usually occurs between labs. The objective is to stay as connected as possible to current challenges in biology and bioinformatics in order to provide methods which are adapted to real data.

REQUIRED EDUCATION LEVEL: Biological sciences: Master Degree or equivalent Computer science: Master Degree or equivalent Mathematics: Master Degree or equivalent

For details click here


Posted on August 21, 2019

PhD students in the areas of cancer cell biology, cancer immunology and computational biology

As a modern maximum-care hospital with a capacity of approximately 1,540 beds, the University Hospital of Cologne is dedicated to the practice of innovative academic medical excellence. At the Faculty of Medicine 1.800 scientists are engaged in research, ranging from basic sciences to clinical application, as well as teaching and health care. Together with the University Hospital Cologne the faculty maintains 58 clinics, research institutes and centres. 3.400 students study in this dynamic and innovative environment. The Faculty of Medicine and the University Hospital Cologne are embedded in the scientifically highly active Rhine region. They have strong contacts to and alliances with the surrounding universities and non-university research institutions guaranteeing scientific excellence in research and teaching.

We are looking for talented scientists driven by the desire to make a relevant contribution to the treatment of cancer patients through exciting scientific discoveries in the lab. The ability to work independently is a must. Successful candidates will have a strong background in basic molecular and cell biology, immunology, biochemistry, computational biology or similar areas.

For details click here


PhD in Phage Biology

At our institute you will find a scientifically stimulating international environment. Together with renowned scientists and supported by an excellent infrastructure you make an important contribution to the improvement of people’s quality of life. The research focus in our lab is on the interaction of bacteria and viruses (phages). As pioneers in the development of “metaviromics” which involves isolating and sequencing the RNA/DNA from all of the viruses in sample directly, we query 'wild' viral populations to identify important key players or interesting strains, and evaluate various hypotheses using model-system approaches.

Job description

The successful applicant will be involved in the development and the use of new methods and tools for illustrating bacteriophages infecting antibiotic resistant bacteria, including

  1. targeted isolating, handling, analyzing phages on antibiotic resistant bacteria (both anaerobic and aerobic);
  2. metagenomic sequencing of phage community infecting certain bacterial hosts
  3. studying the phage-host interaction using metatranscriptomic and metabolomic tools at both community and single-cell level
  4. Engineer phages for therapeutic usages in a cell-free manner

Your qualifications

  • Recent master in virology, microbiology, molecular biology or a related field
  • Experience in any of the following areas: anaerobic bacteria cultivation and isolation, phage isolation and characterization, viral genomics, metagenomics
  • Experience with flow cytometers is advantageous
  • Fluency in English both oral and written
  • High motivation, sense of responsibility, reliability and ability to work in a team

Job ID: 2019/0329

For details click here


Posted on August 19, 2019

7 PhD candidate positions in the life sciences

We are looking for 7 PhD students and 3 Postdoctoral researchers to complete the teams of our newly funded DFG-Research Unit Beyond the exome, which aims to identify, analyze, and predict the disease potential of non-coding DNA variants in patients with rare genetic diseases.

Our research is centred around the question, of how non-coding regulatory mutations and structural variants in the human genome cause disease. For that we have put together a team of 12 Principal Investigators from such diverse fields as Clinical Medicine, Genetics, Biophysics, Cell and Molecular Biology, Bioinformatics, and Machine Learning. Our research is shared between three different Institutions at Berlin that are the Charite University Hospital, the Humboldt University, and the Max Delbrueck Center (MDC) for Molecular Medicine.

Applicants should have a Master's degree in the life sciences and should be willing to work in a highly interdisciplinary Research environment and be able to communicate ideas across classic subject boundaries.

For details click here


Two PhD students | Allergy vaccine design to induce immune tolerance

This collaborative project is led by two departments at the Amsterdam UMC, the department of Molecular Cell Biology and Immunology, location VUmc, and the department of Experimental Immunology, location AMC, joining forces on designing novel allergy vaccines. Prof. dr. van Kooyk, location VUmc, studies the design of new vaccines that target innate immune cells (dendritic cells) for the treatment of cancer and allergy. Prof. dr. E.C. de Jong and Prof. dr. R. van Ree, location AMC, focus on modulation of immune responses in translational allergy in the field of peanut and house dust mite allergy.

We are looking for two highly motivated and enthusiastic researchers. For this position its important that you have a creative and flexible attitute and you are avialible to work flexible hours when the circumstances in the project require. You will be part of a young, multidisciplinary team, with ample experience, and an excellent position within the expert field. Are you a teamplayer with excellent communication skills and do you also have the capacity to work indepenently?

In addition we are looking for two PhD student who have:

  • a Master’s degree in a field related to Biomedical sciences, (medical) biology, biochemistry
  • significant experience with immunological and cell biological techniques;
  • interest in pushing the boundaries of research through technology-driven applications;
  • excellent communications skills in English, both written and verbal.

For details click here


Posted on August 16, 2019

25 PhD positions within the Doctoral Programme

25 PhD positions within the Doctoral Programme, TALENT at the Faculty of Science, University of Copenhagen - co-funded by the European Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie grant agreement No 801199.

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.

The TALENT programme offers 74 PhD fellowships (in total) of 36 months each, attractive employment conditions at one of the 11 departments at SCIENCE and enrolment as a PhD student at the PhD School at SCIENCE. TALENT is a unique programme by requesting, as part of the application procedure, the applicants to devise their own interdisciplinary PhD project within one of the above-mentioned 16 programme areas/panels and to indicate the department, which they find most suitable to host their project, and the names of the main supervisor and co-supervisors. In other words,

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

For details click here


PhD Student in Tumor Immune Evasion

The Cytoskeleton & Cancer Progression team within the Department of Oncology of LIH, is seeking a dedicated PhD Student.

Recently, we demonstrated in vitro that a subpopulation of cancer cells responds to cytotoxic lymphocyte attack with a quick and massive accumulation of actin in the region of the immunological synapse, a process we called the "actin response". Inhibition of the actin response was sufficient to convert resistant cancer cells into a highly susceptible phenotype. From a mechanistic standpoint, we found that the actin response protects target cells from apoptosis by decreasing intracellular levels of a key cytotoxic protease, namely granzyme B, secreted by cytotoxic lymphocytes.

The project aims at characterizing the mechanism by which the actin response prevents granzyme B accumulation in target tumor cells and subsequent cell lysis, and at validating the link between the actin response and a fundamental cellular process we identified in preliminary analyses. The project is largely based on cell imaging (confocal microscopy and imaging flow cytometry) and involves both in vitro cell culture (lymphocytes, cancer cells) and in vivo mouse models.

Ideally the candidate will have :

  • A Master degree in the area of Immuno-oncology.
  • Fluency in English is mandatory.
  • Hands-on experience in experimental lab work using immune and/or cancer cell models.
  • Experience in (imaging) flow cytometry and/or cell imaging approaches.
  • Experience in animal experimentation.
  • Excellent planning and communication skills.

For details click here


Posted on August 14, 2019

PhD position in genetics and bioinformatics

We are offering a 3-year PhD position in the Department of Genetics and Bioinformatics (HDGB) at the Norwegian Institute of Public Health (NIPH) in Oslo, Norway. The position is funded by the Research Council of Norway and is also affiliated with the Centre for Fertility and Health (CeFH), a Norwegian Centre of Excellence at NIPH. The PhD candidate will be part of an interdisciplinary and international research team consisting of, among others, geneticists, statisticians, bioinformaticians, epidemiologists, physicians, and demographers. We are interested in a candidate with an excellent background in statistical and computational analyses, preferably with a master's degree in statistics, bioinformatics or equivalent.

The PhD project is based on analyses of DNA from the Norwegian Mother, Father and Child Cohort Study (MoBa). The aim is to study how maternal active and passive smoking in pregnancy and genetic variants in mitochondrial DNA (mtDNA) affect telomere length in the newborn through oxidative stress. To test hypotheses, sequenced mtDNA and telomere length data from a subset of children in MoBa will be analyzed together with information on maternal active and passive smoking in pregnancy.

Qualifications:

  • Master's degree in statistics, bioinformatics or equivalent
  • Fulfill the requirements for admission to the PhD program at the University of Oslo
  • Experience with relevant programming tools for statistics, such as R, Python and/or STATA
  • Experience with data analysis from nationwide, consent-based health surveys is an advantage
  • Strong knowledge of epidemiological concepts and datasets
  • Strong knowledge of quantitative analysis and experience with causal models
  • Strong command of written and spoken English. Knowledge of Norwegian is relevant but not required.

For details click here


PhD position: Computational biology or bioinformatics

The department Computational Biology for Individualised Medicine (BIIM) of Prof. Dr. Yang Li from the Centre for Individualised Infection Medicine (CiiM) in Hannover, Germany is offering a PhD position: Computational biology or bioinformatics. The goal of our project is the development of algorithms and computer-aided methods to analyze multi-omics datasets (including single cell RNA sequencing data) from patients, to identify crucial molecules in determining disease phenotypes, which can be used as therapeutic targets for personalize medicine in infection research. The methods that we employ or develop in our research are related to the fields of machine learning and systems genetics.

Prerequisite

  • Master’s Degree/Diploma in bioinformatics/biology/statistics/computer science/physics, or a comparable discipline; Experience with advanced statistics is a plus
  • Excellent English communication skills (written and spoken)
  • Ability to work independently and as part of an international team
  • Skills in computer programming (e.g. R, JAVA, Python), experience with different operating systems (Linux, Windows)

Applications accepted until 2019-08-25

Code: 68/2019

For details click here


Posted on August 12, 2019

Doctoral (PhD) student position in RNA biology and genomics

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.

Research group The research group of Dr Claudia Kutter seeks applications for a Doctoral (PhD) student position in the field of RNA and/or chromatin biology as well as functional and/or comparative genomics. The Kutter lab has a track record in deciphering molecular mechanism by which noncoding RNAs (i.e. long noncoding, transfer and small RNA) regulate genes and genome structure in mammalian somatic tissue and in the germline (Ernst et al, NatComm, 2017; Rudolph et al, PLoS Genetics, 2016; Schmitt et al, Genome Research, 2014; Kutter et al, PLoS Genetics, 2012; Kutter et al, Nature Genetics 2011). The research program for this position focuses on gene regulation during cell differentiation and disease progression in mouse and human.

The successful applicant will acquire basic and specialized knowledge and understanding in chromatin, gene regulation, RNA biology, organ development and cancer biology. The work implies to apply, master and develop innovative research methodologies in genomics, transcriptomics and proteomics, next generation sequencing and bioinformatics, statistics, molecular biology and biochemistry, in which the group is specialized in. The post holder is expected to take a strong lead in the project design and management as well as data generation, analyses and interpretation under consideration of ethical standards and scientific research conduct, and collaborate with other team members.

Reference number 2-4104/2019

Last application date 09.Sep.2019

For details click here


PhD Student in Biology

As a modern maximum-care hospital with a capacity of approximately 1,540 beds, the University Hospital of Cologne is dedicated to the practice of innovative academic medical excellence. At the Faculty of Medicine 1.800 scientists are engaged in research, ranging from basic sciences to clinical application, as well as teaching and health care. Together with the University Hospital Cologne the faculty maintains 58 clinics, research institutes and centres. 3.400 students study in this dynamic and innovative environment. The Faculty of Medicine and the University Hospital Cologne are embedded in the scientifically highly active Rhine region. They have strong contacts to and alliances with the surrounding universities and non-university research institutions guaranteeing scientific excellence in research and teaching.

The Center for Molecular Medicine Cologne (CMMC) is a multidisciplinary center at the University of Cologne providing a forum that brings together physician scientists with basic researchers from the Faculty of Medicine and the Faculty of Mathematics and Natural Sciences to perform competitive basic, disease-oriented research. The mission of the CMMC is to advance the understanding of the underlying molecular and cellular mechanisms as a prelude to improving prevention, diagnosis and treatment of many common health problems.

Minimum qualifications:

  • M.Sc. or equivalent degree in biochemistry, biophysics or a related field, completed with above-average grades
  • Experience and publication record in biochemistry
  • Thorough conceptual understanding of signalling pathways
  • Enthusiasm for protein structure, modifications and function as the basis of life processes
  • High level of motivation, endurance and positivity
  • Ability and willingness to work in a collaborative team
  • Excellent communication in English (written and speech)

We prefer online applications, but you also have the opportunity to apply via regular mail quoting the reference number V000001379 to

For details click here


Posted on August 09, 2019

Doctoral (PhD) student position in gene regulation of malaria parasites

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 Wahlgren lab focus on understanding the molecular pathogenesis of Plasmodium falciparum infection and has been actively working towards the development of next generation drug and vaccine to avert the most severe consequences of malaria infection. The group is comprised of an international team of scientists. Furthermore, the group has strong national and international collaborations, and past doctoral students were encouraged and had participated in short research visit to collaborators’ lab, the student can experience working in a different environment and establish a strong research network.

We are looking for an independent and highly motivated candidate with a degree in Medicine, Biomedicine, Molecular biology, Genetics, Biochemistry or similar. Proven experience in eukaryotic biology, gene regulation, transcriptomics, proteomics, tissue culture and the CRISPR/Cas system are desirable. An ideal candidate should have a track record of academic excellence with a strong experimental background in molecular biology. The candidate should be collaborative, scientifically adventurous, curiosity-driven as well as being able to think critically. The candidate is also expected to be meticulous, honest, perceptive and responsive. Prior experiences in a diverse and broad range of molecular techniques, bioinformatics will be added advantages.

Reference number 2-3834/2019

Last application date 15.Aug.2019

For details click here


PhD Scholarship - Venom peptide discovery and neuropeptide research

The University of Queensland’s Institute for Molecular Bioscience, located on the main University campus, is Australia’s leading biosciences research institute. Established in 2000, the Institute is home to over 420 staff and is located in thriving Brisbane, a city consistently ranked as one of the world’s most vibrant and liveable cities.

Our main research efforts situated in this area of Chemical Biology focus on the exploration and translation of these vast and untapped natural libraries towards the development of useful research tools and therapeutics. Solid phase peptide synthesis, the main tool to access these compounds, is a powerful technology for the assembly and chemical modification of these highly chiral and structurally complex peptides. We then use these ligands to develop advanced molecular probes and therapeutic leads to address important questions of unmet medical need.

The successful applicant will develop the following skills during this PhD project:

  • solid phase peptide synthesis
  • organic and medicinal chemistry
  • mass spectrometry, peptide and protein purification techniques
  • nuclear magnetic resonance spectroscopy, circular dichroism
  • recombinant protein expression, cell culture and pharmacological assays
  • various bioassays, proteomics and transcriptomics, peptide drug development
  • bioinformatics

Job No:508190

Applications close: 08 Sep 2019

For details click here


Posted on August 07, 2019

PhD Position in Statistical Phylogenetics

LMU Munich is an equal opportunity employer. We strongly encourage applications from female candidates. LMU Munich intends to enhance the diversity of its employees. Furthermore, disabled candidates with essentially equal qualifications will be given preference.  My group is broadly working on theory and computational methods for Bayesian inference of phylogeny (https://hoehnalab.github.io). The research directions include phylogeny inference, divergence time estimation, diversification rate estimation and model testing. All of our methods are implemented in the open-source program RevBayes (http://www.RevBayes.com) which is the successor software of the popular program MrBayes. The successful applicant will be part of our vibrant RevBayes group and will contribute to further development of the program.

The main research topic for the PhD project is to model speciesdiversification. Species diversity varies significantly over the tree of life (i.e., among different groups)and has changed drastically over time. Diversification rates can change through external factors (e.g., environmental changes)affecting all species within the study groupand through internal factors (e.g., new adaptive traits)affecting only specific lineages.The key questionof the dissertation willbe to identify what has driven these changes in species diversificationrates. The focusof the thesis will be to develop statistical models and perform statistical inference using simulated and empiricaldata.

Applicants should have a Master’s degree, completed or completion imminent, inevolutionary biology, biostatistics, bioinformatics, or a related field. The key skills required are proficiency in R/Matlabscriptingandgood communication skills (oral and written English). Basic knowledge in phylogenetics and statistical inference (especially Bayesian statistics) is beneficial but not required. Training in these skills will be provided depending on need.

For details click here


PhD Scholarship - Physiology of Circadian Rhythms

IMB is a global leader in multidisciplinary life sciences research, bringing together 500 researchers from across the globe for disease discovery, application and sustainable futures. Formed in 2000 as an initiative of The University of Queensland, State and Federal Governments and private philanthropy, IMB is one of the largest life sciences institutes in the Asia-Pacific region. It has capitalised on one of the greatest periods of discovery in history – the genetic and molecular basis of life and its diversity.

Our research has shown that in mice the liver can be up to 30% larger during the night when these animals are active, than during the day. However, this phenomenon occurs only when feeding rhythm is synchronized with the active phase. This observation suggests that a signal occurring during the day opposes the effect of feeding. Nevertheless, the factors contributing to daily liver size fluctuation are still poorly understood. The goal of this project is the characterization of the molecular mechanisms involved in the regulation of rhythmic liver size, in particular through the regulation of protein secretion, and its impact on animal metabolism.

Applicants should have the following:

  • Master degree in biological science
  • Experience in animal and cell biology
  • Knowledge in biochemistry and molecular biology

Applications close: 31 Aug 2019 (12:00 PM) E. Australia Standard Time

For details click here


Posted on August 05, 2019

PhD position: Computational biology or bioinformatics

The department Computational Biology for Individualised Medicine (BIIM) of Prof. Dr. Yang Li from the Centre for Individualised Infection Medicine (CiiM) in Hannover, Germany is offering a PhD position: Computational biology or bioinformatics.

The goal of our project is the development of algorithms and computer-aided methods to analyze multi-omics datasets (including single cell RNA sequencing data) from patients, to identify crucial molecules in determining disease phenotypes, which can be used as therapeutic targets for personalize medicine in infection research. The methods that we employ or develop in our research are related to the fields of machine learning and systems genetics.

Prerequisite

  • Master’s Degree/Diploma in bioinformatics/biology/statistics/computer science/physics, or a comparable discipline; Experience with advanced statistics is a plus
  • Excellent English communication skills (written and spoken)
  • Ability to work independently and as part of an international team
  • Skills in computer programming (e.g. R, JAVA, Python), experience with different operating systems (Linux, Windows)
  • Excellent communication and reporting skills
  • Equal Opportunities are part of our personnel policy. Qualified applicants with a disability will be given preference.

Applications accepted until 2019-08-11

For details click here


Doctoral researcher: RNA structure and function in virus replication

The “Genome Architecture and Evolution of RNA Viruses” (GARV) research group of Dr. Redmond Smyth at the Helmholtz Institute for RNA-based infection research (HIRI) in Würzburg (Germany) is seeking a doctoral researcher (f/m/d).  The genomes of RNA viruses are compact, complex and multifunctional. They encode for viral proteins used to hijack the host cell, as well as non-coding RNA elements that actively participate in the replication cycle. Although these non-coding RNA elements are critical for viral replication, their identity, structure and biochemical function remain underexplored.

The project will focus on understanding the mechanistic details and function of RNA structure in cells and viruses. The doctoral researcher will be involved in the development of new methodologies to study the folding of RNA genomes in three-dimensions, and to decipher how RNA structure interacts with proteins and other nucleic acids to achieve biological outcomes. The doctoral researcher should be comfortable working with human pathogens, including HIV and influenza.

Prerequisite

  • Master’s Degree in biochemistry, molecular biology, molecular virology or a related field within the life sciences.
  • Excellent English communication skills (written and spoken).
  • Ability to work independently and as part of an international team.
  • A strong desire to do research, enthusiastic, creative, and highly self-motivated.
  • Knowledge of Matlab/Python or R is an advantage, but not essential.

Please refer to the job number 76/2019.

Applications accepted until 2019-09-01

For details click here


Posted on August 02, 2019

PhD student position in integrative cancer research

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.

A 4-year PhD student position is now available for highly motivated individuals with interest in integrative can­cer re­search, in the laboratory of Dr Sven Nelander (nelanderlab.org). The goal of the project is to develop a new therapeu­tic strategy against the brain cancer glioblastoma, based on direct in vivo reprogramming of the tumor cells. Working in a team of both theoretical and experimental researchers, you will use two new and powerful experi­mental methods to analyze drug effects in patient-derived brain tumor cells.

Qualifications: The applicant should have MSc degree in a relevant area. For this particular position, we strongly encourage candi­dates with well documented experimental experience in one or several of the area(s) of cancer biology, stem cell biology, RNA se­quencing, phar­macology and genomics. To maximize medical relevance, projects in our lab involve in vivo experi­ments, and such experi­ence is of interest. We also strongly encourage candidates with a technological interest, and a willingness to engage in ana­lytical work with bioinformatics experts, and appreciate if you clarify your level of statis­tics/computer training, or other experience in cross-disciplinary work. We encourage candidate with a record of originality and creativity. Excel­lent skills in oral and written English are required.

You are welcome to submit your application no later than 30 August 2019, UFV-PA 2019/2685.

For details click here


PhD Position - Biology - Single cell genomics of tissue regeneration

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. In November 2013, the Centre for Genomic Regulation (CRG) received the 'HR Excellence in Research' logo from the European Commission. This is a recognition of the Institute's commitment to developing an HR Strategy for Researchers, designed to bring the practices and procedures in line with the principles of the European Charter for Researchers and the Code of Conduct for the Recruitment of Researchers (Charter and Code).

The newly established Single Cell Genomics of Tissue Regeneration lab at CRG Barcelona is looking for a PhD student (biology), who will enrol in the very active CRG International PhD program, which includes science and practical courses, a wide range of complementary skills training, access to many courses, mentoring via a thesis committee, and active participation in the organization of seminars, symposia and retreats.

Deadline: September 15th, 2019

For details click here


Posted on July 31, 2019

PhD scholarship in computational bioinformatics to the Lundbeck Foundation GeoGenetics Centre

The Lundbeck Foundation GeoGenetics Centre, Faculty of Health and Medical Sciences at University of Copenhagen is offering a PhD scholarship for 3 years commencing September 2019 or as soon as possible hereafter.

The fully funded position will be carried out at the Lundbeck Foundation GeoGenetics Centre, a world-leading institution in ancient DNA studies. The candidate will have an opportunity to collaborate with leaders in the fields of paleogenomics, population genetics, quantitative genetics and palaeoanthropology, like Eske Willerslev, Rasmus Nielsen, Martin Sikora, Morten Allentoft. The candidate will have the opportunity to take courses in bioinformatics, computer science, statistical inference, machine learning, data science, population genetics, paleogenomics, paleoproteomics, and archaeological science, among many others.

Applicants should hold an MSc related to human genomic or pathogens degree 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 11 August 2019, 23:59 p.m. CET.

For details click here


Two PhD positions in Virology/Microbiology/Phage Biology

At our institute you will find a scientifically stimulating international environment. Together with renowned scientists and supported by an excellent infrastructure you make an important contribution of the improvement of people’s quality of life. The research focus in our lab is on the interaction of bacteria and viruses (phages). As pioneers in the development of “metaviromics” which involves isolating and sequencing the RNA/DNA from all of the viruses in sample directly, we query 'wild' viral populations to identify important hypotheses that can be evaluated using model-system approaches (Deng et al, Nature, 2014). We also employ sing-cell assays to investigate questions that are critical for modeling and predicting the impacts of phage-host interactions. We are seeking two highly motivated PhD students for the newly funded ERC project to develop phage therapy, which utilizes phages or phage-derived inhibitors as natural ways to fight antibiotic resistance.

Job description

The successful applicants will be involved in the development and the use of new methods and tools for illustrating bacteriophages infecting antibiotic resistance bacteria, including

  • isolating, handling, analyzing phages on antibiotic resistance bacteria
  • studing the phage-host interaction using proteomic tools and validating in vitro and in vivo

Your qualifications

  • Master in virology, microbiology, molecular biology, (environmental) genomics, microbial ecology or a related field
  • Experience in any of the following areas: viral genomics, metagenomics, NGS, proteomics
  • Fluency in English both spoken and written
  • Experience with flow cytometers is advantageous

For details click here


Posted on July 29, 2019

PhD position on Machine learning augmented clinical level imaging of cells related to pathological diseases

Empa is the research institute for materials science and technology of the ETH Domain and conducts cutting-edge research for the benefit of industry and the well-being of society. The group Biosensing and Functional Surfaces within the Transport at Nanoscale Interfaces Laboratory is offering a PhD position on Machine learning augmented clinical level imaging of cells related to pathological diseases.

Empa’s group of biosensing and functional surfaces is developing an unconventional imaging platform for reliable and rapid fingerprinting of pathological diseases by monitoring the shape, size and morphological changes occurring in cells and platelets. To this end, we will combine high resolution scanning probe microscopy with high throughput live cell imaging methodologies. The data obtained from these state-of-the-art techniques developed at Empa will be subjected to machine learning for supporting clinicians in making better prognosis of pathological diseases.

Your profile

  • Completed Master`s degree in molecular/structural biology or biophysics.
  • An outstanding academic record.
  • Previous experience in cell and protein imaging is an advantage.
  • Excellent communication and English language skills.

The successful candidate will participate in scientific collaborations within Empa and work in an international and multidisciplinary environment.

The candidate will conduct research mainly at Empa Dubendorf labs and partly at the Empa St. Gallen labs. The desired starting data is 1st of September 2019 or upon mutual agreement.

For details click here


PhD Scholarship in the High Throughput Exploration of the Sequence-dependence of Protein Aggregation

The newly established research group of Prof. Alexander K. Buell (start April 2019) at DTU Bioengineering is recruiting a PhD student, to start as soon as possible. Our research group will be situated within the section of Protein Chemistry and Enzyme Technology, where world-leading expertise in protein chemistry and structural biology is concentrated. Our laboratory performs cutting edge experimental research in the field of protein and peptide self-assembly and aggregation.

The overall aim of our research is to achieve a profound mechanistic understanding of protein and peptide assembly into ordered (fibrillar, crystalline) and disorderd (amorphous, liquid droplet) condensed phases and of the physico-chemical factors that drive it. To achieve these goals, we also collaborate with structural, computational and medical biologists. The motivation behind our research is to enable rational control of such assembly processes in the context of human disorders, protein biotechnology as well as in the creation of novel types of functional biomaterials.

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 either Chemistry, Biochemistry, Biophysics, Biology, Biotechnology or a related field, and should ideally have carried out an experimental Master’s thesis, where he/she has gained experience with recombinant protein technology. However, excellent candidates with theoretical/computational research experience can also be considered.

Please submit your online application no later than 15 September 2019 (local time).

For details click here


Posted on July 26, 2019

PhD student within Genetic and Molecular Epidemiology

Lund University was founded in 1666 and is repeatedly ranked among the world’s top 100 universities. The University has 40 000 students and 7 600 staff based in Lund, Helsingborg and Malmö. We are united in our efforts to understand, explain and improve our world and the human condition. The Faculty of Medicine is a part of Lund University, and is responsible for education and research within medicine and healthcare. Our academic programs are closely linked with the healthcare system and are firmly anchored in the faculty’s strong research tradition. Our research spans a broad field within experimental preclinical research, near-patient clinical research and health sciences research. The Faculty of Medicine, with its 1,800 employees and 2,700 students in Lund and Malmö, is a knowledge-intensive meeting place for students, teachers and researchers from all over the world.

The successful applicant will have a strong interest in precision medicine, cardiometabolic diseases (e.g. type 2 diabetes, CVD and obesity) and bioinformatics. Proven ability to program in R, Python, Bash, STATA, and SAS, and experience with machine learning methods (e.g. random forests, neural networks) as is essential and experience with web-based genomic analysis tools and databases (e.g. ANNOVAR, Gene Ontology, API, Variant Effect Predictor app, GTeX, HaploReg, UCSC Genome Browser, DEPICT and MAGENTA).

Essential characteristics:

  • - A master’s degree (or equivalent) in epidemiology or biostatistics
  • - Experience handling and analyzing complex datasets
  • - Excellent written and oral communications skills (in English)
  • - A background in diabetes, obesity or cardiovascular disease
  • - Experience with statistical methods for analyzing multivariable models
  • - Coding competence in R, Python, Bash, STATA, and SAS, and experience with machine learning methods (e.g. random forests, neural networks) Advanced familiarity with web-based functional genomics tools

Reference number PA2019/2654

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

For details click here


PhD in computational disease systems biology

A PhD position is available in the Translational Disease Systems Biology 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 PhD student will work in a multidisciplinary project team. The candidate will be working on the BigTempHealth project funded by Innovation Fund Denmark. The overall aim is to investigate how to extract fine-grained phenotypes from big biomedical data including the full spectrum of patient-specific side effects as they are described in longitudinal, structured and unstructured electronic patient record data and how composite data aggregated from different time scales can be used to improve treatment decisions, diagnostics and prognostics.

Qualifications
You hold a master or equivalent in medicine, health informatics, bioinformatics, data analysis or a related discipline of biomedical research. Preferably, you have experience in bioinformatics and biostatistics. Programming experience in R and Python is required as well as having worked with big data. Research experience in machine learning is a plus.

Deadline for applications: 20 August 2019, 23:59 p.m. CET.

For details click here


Posted on July 24, 2019

Four 4-year PhD studentships  in the Van de Peer Lab (Bioinformatics and evolutionary genomics)

Four 4-year PhD studentships are available in the Van de Peer Lab (Bioinformatics and evolutionary genomics) at the VIB Center for Plant Systems Biology at Ghent University, Belgium. The Van de Peer lab studies the evolution of (plant) genomes and in particular the importance of gene and genome duplication for evolution and adaptation. This is done mainly using computational approaches but more recently also using evolutionary experiments and through lab work.

In particular, we are looking for the following applicants:

1) One PhD student will conduct academic research (full-time) in the field of ‘evolve and resequence’ experiments and evolutionary genomics. Starting January 2020.

2) One PhD student will conduct academic research (full-time) in the field of network biology. Starting January 2020.

3) One PhD student will conduct academic research (full-time) in the field of evolutionary genomics. Starting January 2020.

4) One PhD student will conduct academic research (full-time) in the field of insect genomics and epigenetics. Starting January 2020.

For details click here


Computational Systems Biology PhD Position

Are you stimulated by challenging biological problems? Do you wish to work in a truly interdisciplinary environment? Do you want to deploy your math skills to discover the secrets of living cells? Consider applying for a PhD position at the Control Theory and Systems Biology Group (www.bsse.ethz.ch/ctsb) of the Department of Biosystems Science and Engineering (D-BSSE), ETH Zurich in Basel. Applications are invited for the project: An Advanced Stochastic Filtering Framework for the Analysis of Multiscale Biochemical Reaction Networks.

The successful candidate is expected to conduct original research within the scope of this project with the aim of obtaining a PhD degree. The research will be supervised by Dr. Ankit Gupta and Prof. Mustafa Khammash, and it might involve collaborations with other groups at ETH Zurich and also externally. Apart from research the candidate is also expected to contribute to teaching activities. ETH Zurich provides a wonderful platform to PhD candidates to develop professionally and personally, with multiple training opportunities and access to world class research facilities.

The successful candidate must have an undergraduate and preferably a Masters degree in engineering, mathematics, statistics or physics. The candidate should be able to demonstrate, through coursework or projects, expertise in one or more of the following areas: probability theory and stochastic processes; dynamical systems and control; signal processing; estimation and detection theory. Prior experience with reaction network models in biology is desirable but not mandatory. A substantial part of the research project will be computational in nature and hence applicants with good programming skills will be preferred. Opportunities exist for collaborating with experimental scientists to test the proposed theoretical methods.

Last date for receiving applications is September 1, 2019 or until the position is filled.

For details click here


Posted on July 22, 2019

PhD Student in Biotechnology/ Biomedical Sciences/ Bioscience Engineering/ Bioinformatics

Recently the RARE-MED consortium was established at Ghent University, a multidisciplinary consortium for basic and translational research on precision medicine for rare diseases. As one of the partners of this consortium, we want to address the missing heritability in these rare disorders. To this end, you will be engaged in generating and integrating (structural) genomics, epigenomics, transcriptomics and proteomics data to identify putative causal variants in patients with currently unsolved molecular diagnosis. In addition, you will also use state-of-the-art functional assays such as luciferase assays and/or multiple parallel reporter assays (MPRAs) to interpret the effect of the identified (non)coding variants.

We are looking for a talented and highly motivated PhD student to join our enthusiastic and young team. We provide an open and stimulating working environment, in which teamwork, initiative, a critical mindset and originality are highly appreciated. We offer a position for 1 year, which will normally be extended to 4 years in case of a positive evaluation. Note that the latter may require application for a FWO/BOF doctoral fellowship.

Profile of the candidate

  • You obtained a Master of Science in Biochemistry, Biotechnology, Biomedical Sciences, Bioscience Engineering, Bioinformatics or equivalent.
  • You have a strong interest in genetics and molecular biology. Prior experience with next generation sequencing and data-analysis is considered an advantage.
  • You are an accurate and precise worker and possess strong analytical problem-solving skills (creative, critical, thinking out-of-the-box).
  • You can work independently, yet you are also a team player.
  • Candidates must have excellent written and oral communication skills in English.

Last application date Aug 31, 2019 14:37

For details click here


Two graduate students (MSc or PhD) position in Computational Biology

We have full funding for two graduate students (MSc or PhD). The candidates for the positions should have excellent background in life science, statistics/math or computer science. If candidates have background in computer science, they can register in graduate program in The Department of Computer Science. If candidates have background in computer science, engineering, math or statistics, they can register in graduate program in The Department of Electrical and Computer Engineering at The University of Manitoba. If candidates have background in life science, they can register in graduate programs in The Department of Biochemistry and Medical Genetics at The University of Manitoba.

The first position will focus on developing deep learning models for medical images, drug discovery and the second position will focus on developing statistical and computational models for single cell sequencing data analysis.

To apply for the positions, please send a CV, transcripts, related reports/publications written in English to Dr. Pingzhao Hu at pingzhao.hu@umanitoba.ca before September 1, 2019 for Canada/USA applicants to be starting at 2020 Winter Term or October 1, 2019 for international applicants to be starting at 2020 summer term.

For details click here


Posted on July 19, 2019

PhD student position in machine learning / cancer biology

We have an exciting opportunity for a PhD student. The position will be for 4 years and should result in a PhD thesis at the University of Groningen. The PhD student position is available in the research group of dr. Rudolf Fehrmann. The research group is embedded in the Department of Medical Oncology of the University Medical Center Groningen (UMCG), where oncological patient care is coordinated with preclinical and fundamental research on the biology and treatment of cancer. The research group also participates in the Cancer Research Center Groningen (CRCG), which is part of the Graduate School for Medical Sciences.

You will work on a project aiming to unravel the ‘cancer-immune setpoint’ in cancers with machine learning. During cancer development, tumor cells undergo molecular ‘rewiring’ to escape the immune system, often by activating mechanisms that suppress an anti-cancer immune response. Immunotherapy can circumvent some of these mechanisms and thus trigger an anti-cancer response. Evidence is emerging that a complex set of tumor, patient and environmental factors govern the strength and timing of the anti-cancer immune response. The combined result is a ‘cancer-immune setpoint’, which has been defined as the equilibrium between the factors that promote or suppress this response. You will use natural language processing to obtain big-data data from the public domain (genomics and transcriptomics), implement auto-encoders to define molecular subclasses and build neural networks to predict relevant phenotypes for the cancer-immune setpoint.

You can apply until 1 September 2019.

For details click here


PhD Position F/M Artificial Life as a benchmark for evolutionary studies

Grenoble Rhône-Alpes Research Center groups together a few less than 800 people in 39 research teams and 8 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.

This thesis is part of the Evoluthon project, funded by the National Agency for Research in 2019, in collaboration with the LBBE molecular evolution laboratory in Lyon. The goal is to build artificial genomes, organisms and populations, and an in silico evolution system that allows testing methods, principles and software usually applied to the evolution of the living world.

The recruited person will have to construct principles of evolution and functioning of artificial organisms, as close as possible to the biological world, but without in principle importing methods of reconstruction, to evolve in silico organisms usable by the methods of reconstruction. It is planned to start from a solid existing software, Aevol, developed in the team, and to provide several necessary adaptations, such as the structuring of populations or a realistic genetic code.

Analyze the different solutions proposed in the literature for the evaluation of evolutionary methods, in terms of bioinformatics as well as bio-inspired computer science (bibliography). Documentation in software testing method, validation protocols, free software policy and open data.

Deadline to apply : 2019-09-30

For details click here


Posted on July 17, 2019

PhD Scholarship in Genomic prediction in horticultural crops

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. QAAFI’s team of 450 researchers, postgraduate students and support staff undertake high impact science for agriculture and food industries. The institute’s strong partnership with the Queensland Government provides our researchers with a direct link to the agriculture industry in Queensland, and world class field research facilities throughout Queensland.

Selection criteria
Applications are invited from outstanding and enthusiastic domestic or international graduates with background in, or ability to learn, quantitative genetics and /or statistics, plant (preferably tree) biology, and bioinformatics. Applicants should possess a First Class Honours Degree, Masters Research Degree or equivalent, with at least one peer reviewed publication.

Prospective candidates are requested to email an Expression of Interest to craig.hardner@uq.edu.au in the subject line quote ‘PhD Scholarship – Phenotype Prediction job number: 508031'.

For details click here


PhD position on the characterization of neuronal signaling in the intestinal stem cell niche

Applications are invited from highly motivated biology/biochemistry graduates (diploma, M.Sc. degree or equivalent). In our group we use state-of-the art in vitro and in vivo systems to investigate mechanisms underlying the intestinal neuro-epithelial communication in mice. In his/her project the PhD candidate will study key signaling mechanisms by which the enteric neuronal niche modifies epithelial cell function. The focus of the project will be on the modulation of intestinal epithelial stem cells by the neuronal niche and its implications for homeostasis and regeneration.

The PhD project will include interrogation of key signaling pathways using organoid studies as well as experimental in vivo models for cell type specific gene targeting. The candidate will have the opportunity to apply for the PhD program of the TUM Medical Graduate Center (MGC) of TUM Graduate School that provides structured training and supervision. The PhD position is offered for a 3-year period.

Your Profile:
• Very good master or equivalent degree in live or natural sciences
• Strong motivation, scientific curiosity, flexible, independent, with a keen interest in
stem cell biology
• Experimental experience in molecular cell biology and cell culture models;
experience in animal research models is advantageous

For details click here


Posted on July 15, 2019

Fully Funded PhD Position in ‘Single-cell Endocrinology’ Group

The group of Dr. Sumeet Pal Singhat the Institut de Recherche Interdisciplinaire en Biologie Humaine et moléculaire (IRIBHM), an Institute of the Université libre de Bruxelles(ULB), is offering a PhDposition starting 01 November, 2019.

The major aim of the group’s research is to understand the development of cellular communities using endocrine organs, specifically thyroid gland and pancreatic beta-cells, as a model system. The researchis focussed on using zebrafishas a model system. The junior group uses a broad range of molecular, genetic, next-generation transcriptomic and imaging techniques to investigate developmentalprocesses (https://sumeetpalsingh.github.io/).

The PhD student will be involved in live-imaging intercellular signalling pathways in the thyroid gland (https://sumeetpalsingh.github.io/project/live-imaging), and for developing tools modulating cAMP signalling in thyroid follicular cells. The tool development would additional lead to new models of hypo-and hyperthyroid disease models.

Requirements:
1.Diplomas and degrees equivalent to a European Union Master's degree, which includes project work summarized in a written “small thesis”
2.Three referees willing to provide letter of recommendations
3.Excellent knowledge of English
4.Excellent interpersonal and organisational skills

Kindly submit your CV with the contact information for three referees and a letter of motivation by email to sumeetpalsingh@gmail.com.

For details click here


Doctoral Grant: Gastroenterology, oncology and microbiology

The Faculty of Medicine and Health Sciences is seeking to fill a full-time (100%) vacancy in the Department of Translational Research in Immunology and Inflammation, Laboratory of Experimental Medicine and Pediatrics for a Doctoral Grant by the University Research Fund (BOF) in the area of gastroenterology, oncology and microbiology.

Job description

  • You prepare a doctoral thesis in the field of gastroenterology, more precisely a fundamental and translational research focusing on the crosstalk between inflammatory-induced MUC13 signaling and the microbiome in gastric cancer development. For this purpose, different techniques including in vitro cell culture experiments, microscopy, RT-PCR, Western Blotting, ELISA, Next-Generation Sequencing (transcriptomics and metagenomics) and in vivo animal models will be applied.
  • You publish scientific articles related to the research project of the assignment.
  • You contribute to teaching and research in the Department of Translational Research in Immunology and Inflammation, Laboratory of Experimental Medicine and Pediatrics, Faculty of Medicine and Health Sciences.

Profile and requirements

  • You hold a master degree in medicine, veterinary medicine, bioscience engineering, bioinformatics, pharmaceutical or biomedical sciences.
  • You can submit outstanding academic results.
  • Students in the final year of their degree can also apply.
  • Foreign candidates are encouraged to apply.

Applications may only be submitted online, until the closing date August 11th 2019 and should include a copy of your CV and a cover letter.

For details click here


Posted on July 12, 2019

Two PhD positions for computational analysis and modeling of single-cell decisions in pancreas development

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. The wet-lab protocols have already been setup and are producing single-cell omics data. The analysis integrates with the computational lab from the Institute of Computational Biology (ICB) with corresponding machine-learning based tools. One particular project the successful candidate will be working on is the integration of single-cell pancreas data from multiple species.

Your responsibilities

  • Analysis of single-cell omics data in close collaboration with experimental partners
  • Implementation, development and extension of methods for processing and analyzing single-cell omics data (e.g. scRNA-seq, scATAC-seq, Perturb-seq, CITE-seq, spatial transcriptomics, in vivo barcoding and lineage tracing etc.)
  • Modelling cell lineage decision tree

Your qualifications         

  • MSc university 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 learning and scientific work
  • Proficient in written and spoken English
  • Team player being comfortable in interacting with colleagues in an interdisciplinary setting

For details click here


Doctoral student in Biology

Lund University was founded in 1666 and is repeatedly ranked among the world’s top 100 universities. The University has 40 000 students and 7 600 staff based in Lund, Helsingborg and Malmö. We are united in our efforts to understand, explain and improve our world and the human condition. The Faculty of Science conducts research and education within Biology, Astronomy, Physics, Geosciences, Chemistry, Mathematics and Environmental Sciences. The Faculty is organized into nine departments, gathered in the northern campus area. The Faculty has approximately 1500 students, 330 PhD students and 700 employees.

Sap-sucking aphids represent a world-wide threat to agricultural crop productivity by inflicting direct damage and nutrient-deprivation to the host plants, but also by acting as major vectors for plant pathogens such as viruses. The research project aims to engineer aphid resistance into plants by genetic transfer of the biosynthetic pathway for iridoids, pheromones that atract aphid predators, into crops like rapeseed and camelina. Female aphids produce iridoid pheromones to attract male aphids to the plants they are colonising. However, the pheromones also attract predatory insects like green lacewings (Chrysoperla sp.) that will effectively scavenge and remove aphid populations.

Required qualifications

• Master in Molecular Biology, Biology or similar, with experience in molecular biology, genetics and plant physiology.
• Strong verbal and written communication skills in English.
• Highly motivated with strong ability to work independently as well as to collaborate within a research group.
• Practical experience in working with Arabidopsis thaliana or other Brassicaceae is of merit.
• Practical experience in molecular and biochemical techniques such as genotyping, sequencing, bioinformatics, PCR, RNA work, cloning, liquid chormatography or mass spectrometry is of merit.

Eligibility

Students with basic eligibility for third-cycle studies are those who- have completed a second-cycle degree- have completed courses of at least 240 credits, of which at least 60 credits are from second-cycle courses, or- have acquired largely equivalent knowledge in some other way, in Sweden or abroad.

Last application date 15.Jul.2019 11:59 PM CET

Reference number: PA2019/1914

For details click here


Posted on July 10, 2019

PhD position: Computational biology or bioinformatics

The department Computational Biology for Individualised Medicine (BIIM) of Prof. Dr. Yang Li from the Centre for Individualised Infection Medicine (CiiM) in Hannover, Germany is offering a PhD position: Computational biology or bioinformatics.

Tasks
The goal of our project is the development of algorithms and computer-aided methods to analyze multi-omics datasets (including single cell RNA sequencing data) from patients, to identify crucial molecules in determining disease phenotypes, which can be used as therapeutic targets for personalize medicine in infection research. The methods that we employ or develop in our research are related to the fields of machine learning and systems genetics.

Prerequisite

  • Master’s Degree/Diploma in bioinformatics/biology/statistics/computer science/physics, or a comparable discipline; Experience with advanced statistics is a plus
  • Excellent English communication skills (written and spoken)
  • Ability to work independently and as part of an international team
  • Skills in computer programming (e.g. R, JAVA, Python), experience with different operating systems (Linux, Windows)
  • Excellent communication and reporting skills

Code: 68/2019

Applications accepted until 2019-08-11

For details click here


PhD Thesis in the field of Data Science (Precision medicine in oncology)

Roche Pharma Research and Development and the Institute of Computational Biology at the Helmholtz Center Munich invite applications for an exciting PhD position as part of the Munich Data Science Grad School program https://www.mu-ds.de/. The successful candidate will be working in a collaborative and stimulating research environment between Roche Pharma Research and Development (pRED) at the Roche Innovation Center Munich (RICM) and the Institute of Computational Biology (ICB) at Helmholtz. With successful completion of your thesis you will graduate from the Technical University of Munich.

In the past there have been advances in the therapy of oncological diseases and especially targeted therapies have been associated with improved patient outcomes. Nevertheless, characteristics and trajectories of patient populations with lack of response to such treatments are still not fully understood and the true potential of interventions such as cancer immunotherapies might have not been reached yet.

As part of this PhD project, the successful candidate will analyze real-world and clinico-genomic data employing advanced statistical and machine learning methods to identify patient characteristics that could predict response to new treatments such as cancer immunotherapies. The potential PhD candidate for this project will integrate biomarker and clinico-genomics data to help understand mechanisms and features, as well as treatment regimens that might improve patient-centered outcomes employing real-world data analysis.

Your Profile

  • You hold a Masters (MSc) or equivalent in computer science, electrical engineering, math, physics, biostatistics, bioinformatics, or other related fields
  • You have excellent programming skills and are fluent in at least one of the following statistical languages: R, Python, SAS, Matlab
  • You have experience in working with secondary databases such as electronic health records (EHR), claims/dispensing data, registries, population-based data, etc.
  • You have experience in aggregating, manipulating and pivoting data tables (using e.g. SQL, dplyr, etc.)

Job-ID 201907-119625

For details click here


Posted on July 08, 2019

PhD studentship in Bioinformatics and evolutionary genomic

A 4 year, ERC funded, PhD studentship is available in the Van de Peer Lab in Bioinformatics and evolutionary genomic at the VIB-UGent center for plant systems biology. The PhD student will conduct academic research (full-time) in the field of evolution and evolutionary genomics. Starting from January 2020.

Whole genome duplication (WGD) or polyploidisation provides an organism with an extra copy of the genome. As this copy is entirely redundant it has the potential to evolve new functionality. Consequently polyploidy is considered to be a major factor contributing to (plant) evolution. Nevertheless polyploidisation is a rather stressful event as the extra copy of the genome hampers cell division and causes considerable transcriptional and epigenetic upheaval. Several lines of evidence suggest that polyploid success is somehow linked to environments that are considered to be stressful to their lower ploidy ancestors.

Profile

  • The applicant should have a master's degree in biology, bio-technology, bio-engeneering (or equivalent) or will have obtained this degree by the start of appointment: January2020.
  • A strong interest in evolutionary biology is required and experience in both empirical research and bioinformatics are preferred.
  • The student needs to be dedicated to carrying out long-term multidisciplinary research which involves regular maintenance of duckweed cultures, some molecularwork, as well as evolutionary genomic analyses.
  • Basic knowledge of programming/scripting and statistics is required.
  • Fluent English and good communication skills, oral and in writing, are essential.

Motivated candidates are asked to appline online. Application deadline is October 1st.

For details click here


PhD position in Pharmaceutical Sciences with focus on AI/ machine learning

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.

Placement: The PhD student position is associated with the research group Pharmaceutical Bioinformatics.

Duties: The successful candidate will be part of the interdisciplinary research project Hierarchical Analysis of Temporal and Spatial Data (HASTE) within the research group of Assoc. Prof. Ola Spjuth, Co-supervisors will be Prof. Carolina Wählby and Assoc. Prof. Andreas Hellander.

Requirements: The highly motivated candidate, with an academic degree at the Masters level or equivalent (at least 240 credits), should be experienced in programming and have a strong interest in research on AI/machine learning on image data from life science applications. Excellent skills in oral and written English are required.

Please submit your application by 12 of August 2019, UFV-PA 2019/2595

For details click here


Posted on July 05, 2019

Doctoral (PhD) student position in Tumor Biology (KID funded)

Department of Microbiology, Tumor and Cell Biology (MTC) at Karolinska Institutet conduct research and teaching in immunology, infection biology, cell biology and cancer. MTC has about 430 active employees, including 80 PhD students, 77 postdoctoral researchers and 32 professors. Key words are multidisciplinary, bridging, translational, national and international collaborations. 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.

Skills and personal qualities We are seeking a talented, enthusiastic person with an interest in tumor biology. The successful candidate should be self-motivated and has the ability to work productively and dynamically in a group. He/she is expected to actively contribute to both the practical and theoretical parts of the project, and to have excellent communication and organizational skills. Proficiency in oral and written English is necessary. Applicants should hold a masters' degree (or equivalent) in biology, pharmacology or another relevant life science. Excellent laboratory skills in molecular biology and cell culture are required. Previous experience in the research field, proficiency in human stem cell culture techniques and bioinformatics are seen as an advantage. Emphasis will be placed on personal suitability.

Reference number 2-3837/2019

Last application date 12.Jul.2019 11:59 PM CET

For details click here


PhD candidate position in Molecular and Cognitive Neurosciences

We offer a PhD candidate position at the Transfaculty Research Platform Molecular and Cognitive Neuroscience (MCN, https://mcn.unibas.ch/ ) at the University of Basel, Switzerland. MCN focuses on the neurobiological underpinnings of human behaviour and on the development of novel treatment options for neuropsychiatric disorders. Our research is enabled by our in-house computational platform which provides access to multi-omic data sets from preclinical data, clinical trials as well as in-house and public genomics and brain imaging data.

The research project will focus on extending and utilizing our existing computational analytics platform for reproducible research. The successful candidate will collaborate with bioinformaticians, statisticians, psychologists and biologists to identify critical research questions and address them via computational approaches.

The successful candidate will have a Master's degree (or comparable) and a strong background in Psychology, Data Sciences, Bioinformatics, Computer Science, Statistical Genetics, Neuroscience or related disciplines. The ideal candidate will have hands-on experience of programming in R and SQL, experience in using git and Linux as well as affinity to statistical (genetics) methods. While English language skills are essential, German language skills are useful but not essential.

For details click here


Posted on July 03, 2019

Ph.D.  position in computational detection of RNA-DNA triple helices

The Institute for Computational Genomics, RWTH Aachen University performs cutting edge research on computational and genomic methods for understanding regulatory and epigenetic processes driving cell differentiation and diseases (Gusmao, Nature Methods, 2016, Li, Genome Biology, 2019). This project aims studying RNA-DNA interactions as mechanisms of transcriptional control. We have recently shown how long-noncoding RNAs (HOTAIR, GATA6-AS, NEAT1) interacts with DNA via triple helices to control the expression of genes during cell differentiation (Kalwa et al., NAR, 2016; Kuo, NAR, 2019; Frank, Cell Stem cell, 2019).

We are looking for a phd candidate to work on sequence analysis algorithms and statistical models for detection of RNA-DNA triple helices. This includes the analysis of novel in vitro transcription experiments and target sequencing protocols, which capture triple helix forming RNA and DNA molecules. This project will be performed in collaboration with cell biologists of RWTH Aachen, University of Cologne and University of Oslo.

Applicants should hold a M.Sc. (Ph.D.) in Bioinformatics or Computer Science. Experience in the analysis of biological sequences and regulatory genomics is required. The candidate should have solid programming skills (C, Python and/or R) and acquaintance with Unix/Linux. Experience with high performance computing is a plus. The working language of the group is English. The position is a will be initially for 3 years with possibility of extension. The salary corresponds to level 13 TV-L.

For details click here


Ph.D. candidate  in "Computational method development for bulk and single cell RNAseq of inflammatory skin diseases"

The new junior research group “Computational Biomedicine” headed by Dr. Michael Menden has an open PhD position in the field of computational method development for bulk and single cell RNAseq of inflammatory skin diseases. The Institute of Computational Biology (ICB) is globally recognised for innovations in data analysis and modelling of biological systems and diseases, anchored at the Helmholtz Centre Munich and the Technical University Munich (TUM). For our new junior research group ‘Computational Biomedicine' headed by Dr. Michael Menden, we are currently looking for a Ph.D. candidate (f/m/d) in "Computational method development for bulk and single cell RNAseq of inflammatory skin diseases" The PhD position will be co-supervised by Dr. Richa Batra, in collaboration with Prof. Dr. Killian Eyerich and Dr. Stefanie Eyerich.

The Ph.D. project will focus on developing novel disease classifications and patient stratifications of inflammatory skin diseases based on bulk and single cell sequencing. This data is complemented with deep clinical phenotyping as wells as treatment records, enabling to build innovative computational methods to explore drug response dependencies. This project is in collaboration with world leading experimental dermato-immunologist including Prof. Dr. Killian Eyerich and Dr. Stefanie Eyerich from TUM and ZAUM, respectively. Through this collaboration, the Ph.D. student will have access to unpublished clinical data, shape future experiments, develop innovative computational methods and ultimately pave the way for personalised medicine in immunology of inflammatory skin diseases.

Your Qualifications

  • Master’s Degree in Bioinformatics, Biostatistics, Physics, Informatics or equivalent with interest in immunology and inflammatory skin diseases. Alternatively a Master’s Degree in Biotechnology, Biology or equivalent with significant experience and interest in Bioinformatics / Biostatistics.
  • Excellent programming skills in either R, Python or C/C++
  • Scientific curiosity and ability to work independently
  • Excited to work in a young and multi-disciplinary, collaborative environment including academic and industrial partners.
  • Excellent communication and presentation skills, including experience in communicating across discipline boundaries.
  • Fluency in spoken and written English. The following qualifications are considered advantageous

For details click here


Posted on July 01, 2019

PhD position in Bioinformatics with focus on quantitative proteomics and single cell transcriptomics

We are seeking a PhD fellow to apply bioinformatics to analyse high-resolution quantitative proteomics data as well as single cell transcriptomic data derived from the conductive system of the heart. The PhD fellow shall focus on analysis of data produced by colleagues in our team. This will involve in-depth characterization of the molecular differences between the primary components of the cardiac conduction system, specifically the sinus node, the AV node and the purkinje fibers. The position provides an opportunity to develop bioinformatics expertise in quantitative mass spectrometry, cutting-edge discovery proteomics and integrative analysis of big data.

The candidate will be part of the Cardiac Proteomics group led by Associate Professor Alicia Lundby at the Department of Biomedical Sciences and the Novo Nordisk Foundation Center for Protein Research at the University of Copenhagen, Denmark. The research focus of the Cardiac Proteomics group is to use high-resolution LC-MS/MS to obtain insights beyond the current molecular understanding of the heart; both at the level of protein expression, as well as phosphorylation mediated protein signaling. We work closely together with cardiologists in the clinic to ensure high impact and translatability of our research.

The successful candidate will:

- Perform unbiased data-driven analyses of large-scale proteomics and transcriptomics datasets investigating the cardiac expression profiles underlying timely propagation of the cardiac electrical impulse.
- Perform bioinformatics data integration of proteomics and transcriptomics datasets.
- Adapt and translate cutting edge software tools and bio-statistical analyses into streamlined data analysis workflows for mass spectrometry applications and transcriptomic data sets.

Qualifications

- Master degree in Bioinformatics, Computational Biology, Biostatistics or equivalent
- Ability and enthusiasm to learn new methods/techniques
- Good communication skills in English, both oral and written
- Highly ambitious and self-driven
- Previously demonstrated a capacity for excellence
- Experience in high-resolution mass spectrometry (LC-MS/MS) and data analysis hereof (such as MaxQuant, Perseus, R) or experience in single cell transcriptomics (such as Seurat)

Please submit your online application no later than July 24th 2019.

For details click here


Doctoral (PhD) student position with doctoral grant in molecular diagnostics of genetic diseases of the immune system

We are looking for a highly motivated, enthusiastic, and talented student to perform cutting-edge interdisciplinary research, with the overall aim to improve diagnostics and understanding of primary immunodeficiency diseases. At Karolinska Institutet, a doctoral education consists of supervised research tailored to the student, combined with courses and further educational development. The PhD will be undertaken in the research group of Yenan Bryceson.

Department of Medicine, Huddinge The Department of Medicine at Huddinge comprises seven units, encompassing three research centres with 70 independent research groups. The project will be pursued at the Centre for Haematology and Regenerative Medicine (HERM; http://ki.se/en/medh/herm). HERM is a leading translational research centre encompassing research groups involved in haematology, haemopoiesis, immunology and cell therapy.

To address this, the student will learn to employ and interpret data from a wide range of techniques including advanced multi-parameter flow cytometry, FACS sorting, whole-genome sequencing, RNA-seq and ATAC-seq, advanced molecular biology techniques, general data analysis, and bioinformatics. The student will be encouraged to acquire programming skills to facilitate advanced bioinformatical analyses. Working with a dynamic team of researchers and clinicians with strong track-records in immunology, immunogenetics and functional diagnostics, this PhD project offers an ambitious, interdisciplinary and translational opportunity for the student to develop a range of bioinformatic, genetic, molecular, and immunological competences with results ultimately promising to benefit patients and clinical practice.

Applicants should have a relevant educational background in biotechnology, bioinformatics, genetics, chemical engineering, immunology, molecular biology, cell biology, biochemistry, or similar. Candidates with a combined background covering programming, math, and biology are highly encouraged to apply. Interest or experience in the base computational/programing skills needed to learn how to perform bioinformatics will be looked upon favourably. Additionally, previous experience from working in a biomedical research lab or expertise in molecular or cell biology is advantageous.

Last application date 01.Jul.2019 11:59 PM CET

For details click here


Posted on June 28, 2019

PhD student: Marine genomics and bioinformatics

The department for Marine Sciences (http://marine.gu.se/english/) is Sweden's most complete academic environment for marine research and education, and it is one of few such institutions in Europe. The Department for Marine Sciences, founded 2015, brings together expertise in physical oceanography, marine chemistry, marine biology, marine geology, and marine heritage conservation. Thus the department has excellent opportunities to meet future challenges in marine research and education. The department of Marine Sciences are located with permanent staff in Gothenburg and at the research stations Kristineberg and Tjärnö on the Swedish west coast north of Gothenburg.

You will join a team that use experimental and in silico methods to study functional-, ecological- and evolutionary genomics of the diatom Skeletonema marinoi. The successful candidate is expected to work with analysis of genomic and transcriptomic sequence data using bioinformatic methods. The primary computational recourse used in this project is the computer cluster Albiorix (http://albiorix.bioenv.gu.se/) and as a member of the bioinformatics group you will under supervision be part of the maintenance and administration of this system.

We are seeking a highly motivated and independent person with a background in bioinformatics to pursue PhD studies in natural science, specializing in biology. The applicant is expected to have an interest in science-based development of marine genomics and bioinformatics and a willingness to work in a team, flexibility in learning new tasks, and excellent data management, programming and communication skills.

Diary id: PAR 2019/945

Apply by: 2019-07-21

For details click here


PhD fellows in Biological Sciences

The Department of Biology, Faculty of Science at the University of Copenhagen is offering up to four fully funded PhD scholarships within the Biological Sciences commencing 1 November 2019 or as soon as possible thereafter.

The Department of Biology is among the largest Departments at the University of Copenhagen. It employs 475 academic and technical staff and hosts research programmes and teaching curricula that cover all major biological sub-disciplines. University rankings typically place the field of biology/biochemistry at the University of Copenhagen first in Denmark and among the top 30 universities internationally. In addition to a PhD-programme, three BSc study programmes (biology, biochemistry, molecular biomedicine) and four MSc study programmes (biology, biochemistry, molecular biomedicine, bioinformatics) engage close to 2000 students.

Applicants should hold a MSc degree in biology, molecular biomedicine, biochemistry, bioinformatics or closely related field with excellent results. As criteria for the assessment of your qualifications, emphasis will also be laid on previous publications (if any) and relevant work experience.

Application deadline: 01-09-2019
Employment start: 01-11-2019
Department/Location: Department of Biology

Posted on June 26, 2019

PhD in biomedical modelling and machine learning

Teesside University is delighted to be able to offer a number of part funded industrial PhDs to eligible SMEs in the north east. This project is funded by the University and European Regional Development Funding and looks to support local firms with their research and development needs, developing new products and services in key sectors and creating high quality jobs in the local economy. North East England’s universities are joining forces under a £3.9m scheme, funded by the European Regional Development Fund, to connect the region’s businesses with research to encourage growth and job creation.

Changes in microbiomes have been recently linked with major impacts on human health. Furthermore, sequencing studies can elucidate the abundance of the species with high accuracy. The large number of species and biological components involved in these microbiomes, coupled with their highly dynamic behaviour, make it difficult to extract information from available biological samples. Another major challenge is that such populations are often mixed (bacteria and fungi).

This PhD studentship opportunity is offered through the Intensive Industrial Innovation Programme (IIIP). The IIIP Programme is a collaboration between Northumbria, Durham, Newcastle and Teesside Universities, receiving up to £2,202,411 of funding from the England European Regional Development Fund (ERDF) as part of the European Structural and Investment Funds Growth Programme 2014-2020.

Applicants should hold or expect to obtain a relevant degree at 2.1 minimum, or an equivalent overseas degree in Bioinformatics, Mathematics, Engineering, Physics, Computer Science or a closely related subject. Good programming skills are desired. Previous experience in general mathematical or biomedical modelling is also desired, but not essential. International students would be subject to the standard entry criteria relating to Tier 4 visa procedures English language ability and ATAS certification.

Deadline for applications: 28/06/2019

For details click here


PhD position bioinformatics

The Departments of Genetics and Pediatrics, at the University Medical Center Groningen, the Netherlands, are looking for a potential PhD student or junior postdoc in the field of bioinformatics to assess the contributions of microbiome-derived signals in the etiology of age- and obesity-related cardio-metabolic diseases through (immune) senescence.

The candidate will investigate the role of gut microbiota composition in immune senescence, predisposition to cardiovascular diseases, and its relation to host genome, environment and lifestyle. This project is a part of “Inflammatory Reprogramming by Ageing and Microbiome - Targets for Treatment of Cardiovascular Disease”, a large, national project funded by CVON (CardioVascular Onderzoek Nederland). This project involves multi-omics integration in multiple human cohorts and assesses the impact of the gut microbiota, immunological parameters related to ageing and risk to CVD.

What do we need

  • M.Sc. degree in bioinformatics, computational biology, systems biology or a comparable discipline. The candidate with experiences in microbiome, metabolism and immunity is preferable.
  • Experience with advanced statistics, biology or biochemistry
  • Excellent oral and written communication skills
  • Fluency in English

You can apply until 7 July 2019.

For details click here


Posted on June 24, 2019

Phd Position In Bioinformatics And Oncology

We are looking for a PhD student in the field of translational bioinformatics. The project aims to detect chromosomal breakpoints with impact on colorectal cancer. Colorectal cancer (CRC) is caused by genomic alterations such as point mutations, DNA copy number aberrations and structural variants, the latter comprising deletions, insertions, inversions, and intra- and inter- chromosomal translocations, all of which involve chromosomal breaks. The impact of recurrent chromosomal breaks in CRC has been poorly characterized (van den Broek et al, 2015). This project will use advanced bioinformatics analyses and machine learning techniques to characterize recurrent breakpoint genes in more detail, in order to improve molecular DNA-based classification and thereby stratification of CRC patients for early diagnosis, prognosis and therapy prediction.

The computational challenge is to detect relevant breakpoints while filtering the experimental and biological background signal. The aim of this project is to use advanced machine learning techniques to characterize recurrent breakpoint genes in more detail, in order to detect those events with a direct impact on the tumor. By learning over multiple molecular and clinical data sources, we hope to improve molecular DNA-based classification and thereby stratification of CRC patients for early diagnosis, prognosis and therapy prediction.

Specific Requirements

  • An MSc degree in Bioinformatics, computational biology or an MSc degree in the Life Sciences, with a specialization in Bioinformatics
  • A strong interest in biomedical research and oncology
  • Able to write bioinformatics workflows using Python and R
  • Good communication and academic writing skills

If you have any questions regarding this vacancy, you may contact:

Name: Caroline Waij
E-mail: informatica.secretariaat.few@vu.nl

For details click here


PhD scholarship in Protein Structure, Function and Proteomics

A PhD fellowship is available in the project “Molecular Insight of Alginate Degradation by Human Gut Microbiota and Host Interplay”. The research is carried out at DTU Bioengineering in collaboration with DTU Food, DTU Biosustain, Architecture et Fonction des Macromolécules Biologiques (AFMB), Marseille, Division of integrated Life Science, Graduate School of Biostudies, Kyoto University and Department of Biotechnology, Norwegian University of Science and Technology, Trondheim.

Responsibilities and tasks

You are our new PhD student, interested in

  • Identification of gut bacteria degrading defined alginates by bioinformatics and functional screening of microbiota and genome analysis of relevant bacteria for alginate specific polysaccharide utilization loci and other important genes
  • Proteomic analysis of impact of alginate on gut bacterial cross-feeding
  • Untargeted metabolomics on bacterial culture supernatants
  • Analysis of influence of bacterial alginate utilisation on gut epithelium using RNAseq and proteomics as well as proteome analysis of host cells exposed to bacterial cultures using a two-chamber anaerobic ! aerobic system
  • Production of recombinant alginate utilizing enzymes and proteins and characterization of their biochemical and structural properties

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.

Please submit your online application no later than 27 June 2019.

For details click here


Posted on June 21, 2019

PhD Position - Single-cell and functional genomics

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.

Our group studies genome regulation from an evolutionary systems perspective. In particular, we are interested in deciphering the evolutionary dynamics of animal cell type programs and in reconstructing the emergence of genome regulatory mechanisms linked to cell type differentiation (from transcription factor binding through chromatin states to the physical architecture of the genome). To this end, we apply advanced single-cell genomics and chromatin experimental methods to molecularly dissect cellular phenotypes and epigenomic landscapes in phylogenetically diverse organisms.

We are seeking a highly motivated candidate to join our team to work on an interdisciplinary project (experimental and computational) involving single-cell genomics and chromatin profiling in different systems. The research program for this position focuses on elucidating the origin and early evolution of animal genome regulation and cell type diversity (neurons, muscles, secretory cells, etc). To this end, you will apply advanced functional genomics to characterize cell types and regulatory genome features in diverse non-bilaterian metazoan species (Porifera, Ctenophora, Placozoa and Cnidaria). Specifically, this involves: (i) scRNAseq to define cell type-specific gene expression, (ii) fluorescent in situ hybridization (FISH) to validate scRNAseq-predicted cell type markers, and (iii) bulk ChIP-seq and HiC to map chromatin states and the physical compartmentalization of the genome. You will also participate in the analysis, integration, and interpretation of these omics datasets.

Deadline: June 23rd, 2019

For details click here


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.

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.

You can apply for this job no later than July 31, 2019

For details click here


Posted 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

 

 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

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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