PhD scholarship

 PhD scholarship in Bioinformatics, Genomics and Life Science:


Update on March 31, 2022

PhD /graduate degree at a top 100 university - april 2022

The Graduate School of Natural Sciences (GSNS) at Aarhus University are looking for a number of bright, enthusiastic and ambitious candidates who are interested in pursuing a PhD education.

We offer a number of PhD positions in the following programmes:

The University is located in Aarhus, Denmark, which provides international students with a safe and stable environment, a high standard of living and a wealth of social opportunities. Besides having an excellent reputation that enables our PhD graduates to find outstanding employment prospects, Aarhus University offers attractive working conditions, research support and campus resources.

Applications are accepted from students and graduates with an academic record corresponding to a Bachelor’s or Master’s degree. The application deadline is 1 May 2022 at midnight 23:59 CEST, with a starting date of 1 August 2022 or later.

For details click here


PhD Student Positions in Pancreatic Cancer Research and Computational Biology / Bioinformatics

We are the Klinikum rechts der Isar (MRI) Hospital of Munich Technical University (TUM) and a reliable employer of around 6,600 people. Being a university hospital, we not only look after our patients but, based on our motto “Knowledge Creates Cures” (Wissen schafft Heilung), we are also engaged in research and teaching, enjoying an excellent national as well as international reputation.

The successful candidates will have the opportunity to:

  • Gain important insights into clinically relevant aspects of cancer development and therapy
  • Learn and apply a wide spectrum of genetic, molecular and cell biology, biochemical as well as immunological and bioinformatics techniques to study translational aspects of cancer (e.g. Cre / loxP and FLP / FRT-based dual- and triple recombinase systems, organoid culture, orthotopic transplantations of cells / organoids, CRISPR / Cas9, molecular in vivo imaging, quantitative proteomics / phosphoproteomics, multiple transcriptomics and genomics approaches, single-cell sequencing, histo-cytometry)
  • Set up bioinformatics platforms and develop computational pipelines for the analysis of bulk and single-cell RNA- and DNA-sequencing datasets, advanced barcoding and proteomics / phosphoproteomics
  • Integrate these datasets with molecular (WES, WGBS, lcWGS, ChIP-seq, ATAC-seq), phenotypic (e.g. histology), drug screening and clinical information
  • Aid researchers select and use computational and statistical tools relevant to their single-cell sequencing projects
  • Interact within a diverse and multidisciplinary environment of biologists, clinicians, computational scientists, and mathematicians within the TranslaTUM

Your profile:

We are looking for exceptional self-motivated bright individuals with a Diploma or Masters degree in bioinformatics, biochemistry, biology, molecular / translational medicine, or related subjects. Previous exposure to and experience with basic biochemical and molecular biology techniques, proteomics, or bioinformatics as well interests in molecular aspects of cancer research is essential. Due to the interdisciplinary framework and close collaboration between wet lab and computational scientists, good communicative skills are essential.

For details contact Prof. Dr. med Dieter Saur, E-mail: dieter.saur@tum.de


Posted on March, 2022

12 Doctoral Candidates in Plant Proteomics, Bioinformatics and Biology

The opportunity: Plants are the nutritional basis of life on earth and protein-rich foods from plants are a global megatrend essential for sustaining an increasing human population and counteracting climate change. However, little is known about crop proteomes – the entirety of proteins that execute and control nearly every aspect of life. Therefore, TUM has launched a visionary initiative with high socio-economic relevance on the topic of “The Proteomes that Feed the World”.

Requirements: Candidates must hold an internationally recognized MSc degree in a life science discipline or in (bio-)informatics. We aim to recruit individuals of the highest potential typically from the top 10% of an academic year. Candidates and must have a good command of the English language and very good interpersonal and intercultural skills. We are looking for self-motivated and broadly interested individuals with a strong sense of responsibility.

Application process: Applicants should send a dossier containing a motivational statement (max. one page), a curriculum vitae summarizing qualifications and experience, copies of degrees and transcripts of study records, names and the email addresses of at least one referee as a single PDF document and no later than March 31st 2022 to info.proteomics@ls.tum.de. Online interviews will be conducted with selected candidates and remaining shortlisted candidates will be invited to the TUM campus in Freising, Germany for one full week of face-to-face meetings with representatives of the faculty of life sciences, the TUM Graduate School and individual research groups. All successful candidates are required to start October 1st, 2022.


ENLIGHT-TEN+ Early Stage Researcher PhD Three-Year PhD Studentship

ENLIGHT-TEN+, a Marie Sklodowska-Curie Innovative Training Network (ITN-ETN) funded in the framework of the HORIZON 2020 program, is aiming to link informatics and genomics of helper T cells in tissues. A crucial missing link in our current research environment is the lack of qualified individuals who possess the cellular immunology skills to recognise and define important scientific questions amenable to -omics approaches and also the bioinformatic expertise to interrogate and interpret the resulting big data appropriately. Thus, our mission is to provide cross-disciplinary training for a new generation of enthusiastic researchers who have in-depth understanding of T cell immunology and are also capable to handle large datasets.

The network of 15 beneficiaries from 10 European countries combines ample expertise on T cell biology with state-of-the-art technologies generating big data, cutting-edge bioinformatic tools including artificial intelligence, preclinical models and samples from patient cohorts. ENLIGHT-TEN+ will identify microenvironmental factors shaping the functional properties of tissue-resident T cells, which offer important therapeutic potential in various human autoimmune diseases, making them a key target for pharmaceutical companies. The Early Stage Researcher (ESR) will be empowered to push our knowledge of tissue-resident T cells beyond the state-of-the-art which will enable the identification of novel biomarkers and support the development of advanced therapeutic concepts.

Fellowship: The monthly gross salary will be in accordance with the EC Marie Skłodowska-Curie rates and will be paid by the host organisation. The salary may be subjected to tax according to applicable national regulations. The position is aimed at being full-time and is designed for a duration of 36 months.

Eligibility criteria:

You must hold a master degree in a relevant discipline (Biology, Medical/Molecular Biology, Biochemistry, Systems Biology, Bioinformatics, Mathematics, Physics or another relevant discipline), or will receive this before the appointment date.
You have received your master degree < 4 years before the date of appointment and have not been awarded a PhD degree.
You can be of any nationality, but have not resided or carried out your main activity (work, studies, etc.) in the UK for more than 12 months during the 3 years immediately prior to the appointment date.
You must not have spent more than 12 months in the 3 years immediately prior to the date of selection at the Wellcome Sanger Institute.

Closing Date 15 November 2021

For details click here


PhD Student in Computational Systems Biology at CIC bioGUNE

The Computational Biology Group at CIC bioGUNE seeks a highly skilled and motivated PhD student to work on an exciting project that aims at developing a computational framework for modeling inter-cellular interactions to understand the mechanisms of tissue homeostasis and regeneration. In particular, the successful candidate will develop cell-cell interaction models, using network-based computational approaches and single-cell transcriptomics data. Furthermore, the candidate will build data-driven computational models for cell population dynamics and design strategies for cellular reprogramming that will be applied to design novel regenerative medicine strategies in the context of muscle and liver tissues. In this regard, the successful candidate will maintain the CBGs long-standing collaboration track with experimental biologists to validate predictions of the models.

Requirements of the ideal candidate: 

  • Msc degree in bioinformatics, biology, computational biology, computer science, engineering, physics or a related discipline
  • Strong computational skills
  • Prior experience in mathematical modelling of biological networks is an asset
  • Excellent working knowledge in English.

We offer:

  • Opportunity to do research into biomedical problems within a highly dynamic research institution (CIC bioGUNE) and in collaboration with an internationally recognized partner
  • An exciting international environment
  • A fully-funded position

Applications should be sent to: Prof. Dr. Antonio del Sol E-mail: adelsol@cicbiogune.es


Posted on October 03, 2021

PhD Student (m/f/d) in Mass Spectrometry and Informatics

The Leibniz-Forschungsinstitut für Molekulare Pharmakologie (FMP) belongs to the „Forschungsverbund Berlin e. V. (FVB)“. The FVB is an institution of seven natural sciences research institutes in Berlin funded by the Federal Republic of Germany and the association of its federal states. The research institutes are members of the Leibniz association. In the group Structural Interactomics (led by Prof. Fan Liu) there is an opening for a PhD Student (m/f/d) in Mass Spectrometry and Informatics.

Our group focuses on using multi-disciplinary approaches that combines proteomics, cross-linking mass spectrometry, molecular biology, structural biology and bioinformatics to investigate the organizational aspects of protein assemblies and their functions in various organelles. For this position, we are particularly looking for an informatician who has strong interests in developing new informatics tools for mass spectrometry analysis. In addition, opportunities are also available in developing software packages with industrial corporations. We provide an international, innovative and interdisciplinary work environment, with access to state-of-the-art mass spectrometry platform as well as many other infrastructures within the institute and on campus Buch.

Qualification

We seek highly motivated, ambitious, and talented scientists to join an enthusiastic and collaborative team in an outstanding scientific environment to perform research. Candidates with a background of informatics and/or mass spectrometry techniques are especially encouraged to apply. A good command of the English language and a high personal motivation to excel in science are required.

Application

Please send your complete application documents including a letter of motivation, CV, transcripts as well as the names and contact information of two references by email to Prof. Dr. Fan Liu (fliu@fmp-berlin.de) before Oct 30th, 2021.

For details click here


PhD Research Fellow in cheminformatics and molecular design

There is a vacancy for a PhD position in cheminformatics and molecular design at Department of Chemistry. The position is allocated to an interdisciplinary project within energy transition funded by the University of Bergen and involves close collaboration, and co-supervision of the PhD student, between Department of Chemistry and Department of Department of Informatics. The position is for a fixed-term period of 3 years with the possibility of a 4th year with compulsory other work (e.g., teaching duties).

The project group develops leading cheminformatics-based methods for molecular design, in which molecules are evolved to exhibit desired properties using evolutionary algorithms. Working at the interface between chemistry and informatics, the PhD student will add specific new capabilities to these design methods and, among other things, draw upon concepts of machine learning (a project-group strength) to improve convergence toward molecules with superior properties and principles of software design (another project-group strength) to implement the new capabilities in effective computer programs.

Qualifications and personal qualities:

  • Applicants must either hold a master’s degree or the equivalent in chemistry or other molecular or materials sciences (including interdisciplinary fields such as nanoscience, bioinformatics, and cheminformatics). Master students can apply provided they complete their final master exam before 22.12.2021. It is a condition of employment that the master’s degree has been awarded.
  • The candidate must have a background in quantum and/or classical molecular modeling, with documented experience in practical applications of such modeling.
  • Experience with modeling of transition metal compounds is an advantage.
  • Experience or training in cheminformatics is an advantage.
  • Experience with scripting languages is required.
  • Experience with object-oriented programming and code development is an advantage.
  • Experience in data analysis and/or machine learning is an advantage.

Deadline 1st November 2021

For details click here


Posted on September 10, 2021

20 Fully funded PhD studentships in Quantitative Biology

The advent of large-throughput data is transforming life sciences into an increasingly quantitative discipline. The University of Lausanne (Switzerland) is at the forefront of this revolution, with quantitative research ramping up throughout the Faculty of Biology and Medicine, a dedicated department of Computational Biology, and interdisciplinary units such as the Center for Integrative Genomics. UNIL also hosts the headquarters of the Swiss Institute of Bioinformatics, to which many quantitative research groups are affiliated, and closely collaborates with EPFL on the same campus. Ideally situated along the lake of Geneva, near Lausanne’s city center, UNIL brings together over 120 nationalities.

UNIL’s Faculty of Biology and Medicine has recently launched a doctoral program entitled “Quantitative Biology”. A wide range of research groups are recruiting PhD students, covering areas as diverse as Genetics, Cell biology, Metabolism, Computational biology, Oncology, Evolution, Microbiology, Imaging, Molecular biology, Neuroscience, Gene regulation, Radiobiology, Plant science, Ancient DNA, Population Genetics, Single-cell Genomics, Epi-lipidomics, Stem Cell Biology, Tissue Engineering and Biomaterials.

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 start date 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 the 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 a non-biological background (e.g. computer science, maths, physics), who are highly motivated to transition to Life Sciences

Application deadline: October 15, 2021

For detail click here


PhD in computational biology

The VIB-UGent Center for Plant Systems Biology (PSB, www.psb.vib-ugent.be) is a world-leading plant science institute with the mission to integrate genetics, genomics, and computational biology to unravel the biology of plants and to improve sustainability and climate resilience of crops. The Maere lab at PSB (http://www.psb.vib-ugent.be/esb) is active in the fields of computational biology, evolutionary genomics, and plant systems biology. Current research topics include testing a novel experimental setup to unravel the molecular wiring of plant phenotypes under field conditions, studying dosage balance-sensitive genes in plants, and modeling the evolution of transcriptional systems in silico. We are currently looking for a talented Ph.D. student to join our team (4-year position).

In recent years, the Maere lab has developed a methodology to link genes to phenotypes based on profiling individual plants grown in a common field, see https://doi.org/10.15252/msb.20209667 . We are currently using this single-plant -omics setup to reverse engineer complex traits in rapeseed (Brassica napus) and have generated datasets profiling the transcriptome, soil nutrient levels, several microbiomes, and >40 phenotypes for a large set of field-grown rapeseed plants.

Profile

  • You have an MSc degree in Biological Engineering, Computational Biology, or Bioinformatics. Candidates with an MSc degree in Mathematics, Physics, Engineering, or Computer Science and a strong interest in complex biological systems may also apply.
  • You have a passion for science.
  • You are fluent in English (spoken and written) and master several programming languages.
  • Experience in machine learning and -omics data analysis is a plus.
  • Wet-lab experience and field trial experience are pluses.
  • You can work in a team as well as independently.
  • You are meticulous, well-organized, responsible, and self-critical.
  • You take pride in delivering high-quality work.
  • You can think outside the box.

Application deadline: November 06, 2021

For details click here


Posted on September 01, 2021

PhD fellowship in Glycomics/ Glycobiology and mass spectrometry

Copenhagen Center for Glycomics (CCG) is a Danish National Research Center devoted to the study of diseases caused by defects in the biosynthesis and structure of complex carbohydrates. Currently, CCG comprises five research groups and hosts about 10 post docs and 15 PhD students in addition to Master students and guest researchers. CCG strives be a leader in glycosciences in pioneering transformation of the field towards wider integration into main stream cell biology by developing experimental strategies, informatics approaches, and sustainable resources amenable not only to experts.

We are offering a PhD fellowship in glycobiology. The successful candidate(s) will be employed at the Department of Cellular and Molecular Medicine (ICMM) at the Faculty of Health and Medical Sciences, University of Copenhagen. We are looking for one or more highly motivated and skilled researcher(s) with experience in glycobiology and mass spectrometry, gene targeting, and neural tissue models. The successful candidate(s) will be employed as a PhD student at the Department of Cellular and Molecular Medicine at the Faculty of Health and Medical Sciences, University of Copenhagen, and the employment starting on 1 December 2021, or as soon as possible thereafter.

The position is related to a specific project on analysing how glycans affect the function of the human neurological system. We will use genetic engineering and mass spectrometry technologies combined with neural cell and tissue models, we aim to perform a systematic dissection of glycans in neuronal differentiation, synapse formation, and the interplay between neurons and glial cells. We believe the program has the potential to impact pharmacological intervention in neural diseases.

Application deadline: 12 September 2021, 23.59pm CET

For details click here


PhD positions (for 3 years) within the DFG Research Training Group 2740 "Immuno Mircotope"

The Universitätsklinikum Erlangen and the Friedrich-Alexander-Universität Erlangen-Nürnberg (FAU) have a strong research focus in clinical and infectious disease immunology. Since their foundation in 1743 and 1815, respectively, FAU and the Universitätsklinikum Erlangen have developed into leading research centers and offer an excellent environment for the training of scientists. PhD positions (for 3 years) within the DFG Research Training Group 2740 “Immuno Mircotope”, Universitätsklinikum Erlangen and Friedrich-Alexander-Universität Erlangen-Nürnberg.

We are welcoming applications by highly motivated scientists to contribute to the newly approved Research Training Group (RTG) 2740 funded by the DFG. The RTG 2740 consists of 11 research groups focussing on the in situ analysis of the anti-infectious immune response and its evasion by microorganisms mediated by the micromilieu components and metabolic products at the site of infection (“immunomicrotope”). Within the RTG 2740, 14 scientists will be trained on the characterization of host- or microbe-derived factors that shape the microenvironment in the infected tissue and thereby regulate the function of immune cells and/or the pathogenicity and survival of non-viral infectious agents.

Essential experience/qualifications:

Candidates for the doctoral positions in natural science (Dr. rer. nat.) or human biology (Dr. rer. biol. hum.) must hold a M.Sc. degree in immunology, microbiology, cell and molecular biology, biochemistry, molecular medicine, applied mathematics, theoretical physics or in bioinformatics.
Enthusiasm for experimental in vitro and in vivo research, self-reliance, ability to work in a team, excellent skills of the English language and an intrinsic motivation for the specific training program of the RTG 2740 are expected.

Applications: Please submit your application to E-Mail: immunomicrotope.mh@uk-erlangen.de

For details click here


Posted on August 31, 2021

PhD Scholarship in AI-driven drug discovery and big data

We are introducing one of the most generous and prestigious PhD scholarships of any university in Australia. With a highly competitive stipend, this scholarship aims to support a community of future thought leaders addressing some of the most pressing global challenges through the advancement of AI and data science. Graduate research students receiving the Monash Data Futures Institute PhD Scholarship will learn from eminent academics and researchers from across the Humanities, Science, Engineering, Technology and Medicine fields.

A PhD scholarship is available to work with experts across the Faculty of Medicine, Nursing and Health Sciences and the Faculty of IT at Monash University. You will combine big pharma data, molecular dynamics, cutting-edge deep learning and artificial intelligence (AI) to design next-generation polymyxins, the last-line antibiotic therapy to treat infections caused by Gram-negative bacterial pathogens. You will join an international leading research team with skills and expertise in bioinformatics, computational biology, machine learning, antimicrobial chemistry and microbiology to develop novel antibiotic therapeutics to fight against the unmet global challenge – antimicrobial resistance. The project has the potential to transform antimicrobial discovery through interdisciplinary innovation.

You will be involved in data-driven big pharma data analytics, through learning to apply cutting-edge deep learning techniques and combine the currently available polymyxin data to develop the quantitative membrane-based structure- or signature-activity relationship model for the discovery and design of novel polymyxins against polymyxin-resistant Gram-negative bacterial pathogens. During the project you will be expected to learn the basics of antimicrobial chemistry, bioinformatics, machine learning and AI development. Ideally, you should have data-driven bioinformatics/machine learning/deep learning background and skills. Applicants should have a related master’s degree and co-authored papers in either of the six disciplines: Computer Science, Information Technology, Software Engineering, Bioinformatics, Computational Biology, or Physics. Applicants with a degree in other related fields are also encouraged to apply.

Expires on August 31, 2021

For detail click here


PhD fellowship in Metabolic Genomics

The Novo Nordisk Foundation Center for Basic Metabolic Research’s vision is to strengthen interdisciplinary research that transforms our basic understanding of the mechanisms that underlie metabolic health and disease, and to accelerate this knowledge toward new prevention and treatment strategies.

We seek an enthusiastic, passionate researcher to perform a PhD project in metabolic genomics and data science. The main objective of the PhD project is to identify candidate causal enhancers, gene regulatory networks and effector genes regulating energy homeostasis. The project will involve analysis of multimodal single-cell RNA- and chromatin accessibility data, analysis of genetic CRISPR/Cas9 perturbation data and modelling of enhancer to gene mapping. The successful applicant will apply these techniques on human post-mortem brain and rodent brain samples and work in an interdisciplinary team comprising molecular biologists, mathematicians and computational biologists.

Key criteria for the assessment of applicants:
Applicants must have qualifications corresponding to a master’s degree related to the subject area of the project e.g. molecular biology, molecular biomedicine, biochemistry, medicine, bioinformatics or biotechnology etc.

Other important criteria are:

  • Achievement of top grades in a molecular biology master’s degree.
  • A degree in mathematics or substantial coursework amount to at least 2-y curriculum.
  • Completion of courses in applied and theoretical statistics.
  • Pronounced experience in programming languages R and python.
  • Prior experience in working with deep learning techniques, ideally tensorFlow.
  • Prior experience in working with single-cell data.
  • Prior experience in working with enhancer-to-gene-mapping modeling.
  • Excellent written and spoken English language skills.

Application deadline: 22 September 2021, 23.59pm CET

For detail click here


Posted on January, 2021

PhD student in pharmaceutical bioinformatics

Uppsala University is a comprehensive research-intensive university with a strong international standing. Our ultimate goal is to conduct education and research of the highest quality and relevance to make a long-term difference in 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 45,000 students, 7,000 employees and a turnover of SEK 7 billion.

We are currently looking for an ambitious, highly motivated PhD student with a solid background in data science and AI, to join the research group of Prof. Ola Spjuth (group website: https://pharmb.io). 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 systems medicine. The focus of the project is to develop and apply methods for analyzing images from large-scale high-content imaging experiments such as drug screening.

Requirements: The highly motivated candidate should have a MSc in science, data science, bioinformatics, or equivalent field. Documented experience in data science, python programming, image analysis and experience from working on linux-systems is a requirement. AI/ML-modeling with methods such as deep neural networks trained on image data is a requirement. Previous experience of image analysis of cells, specifically using high-throughput and high-content microscopy imaging, is meriting.

Please submit your application by 28 january 2021, UFV-PA 2020/5036.

For details click here


Early Stage Researcher: Machine Learning predictions of peptide behaviour

The Flemish Institute for Biotechnology (VIB) in Ghent is a life sciences research institute that operates in close partnership with Ghent University. Dedicated to cutting-edge basic research with a strong focus on translating scientific results into pharmaceutical, medical, agricultural, and industrial applications. Thanks to the hard work of many people for almost 25 years and the support of sustained investment by the government of Flanders, VIB is widely recognized as an established and world-leading knowledge center in life sciences and biotechnology with an excellent reputation in technology transfer.

The overall objective of this research project is to enable a much more sensitive yet reliable identification of (modified) peptides through DDA and DIA approaches. This will be achieved through four sub-goals: first, a novel predictor will be made for ion mobility behaviour (collisional cross-section) of (modified) peptides; second, a novel predictor will be made for the retention time of (modified) peptides; third, based on these two predictors alongside our existing MS2PIP predictor for fragmentation spectra, advanced theoretical spectral libraries will be built for DIA-based identification; fourth, we will add these two predictors to complement the core modules in our existing cloud-based ionbot tool (https://ionbot.cloud) for open modification searching in DDA data.

Applications must be in English. Applicants may indicate 3 ESR Projects which they would like to work on, ranking them in order to preference. Uploading reference letters is not mandatory, but applicants should be aware that referees will be automatically contacted after submission and receive a questionnaire. Candidates must provide all information before the deadline. Candidates should ensure that referees answer the questionnaire.

Application deadline: 31 January 2021

For details click here


Posted on December 24, 2020

8 PhD students (Early Stage Researchers, ESRs)

Within a newly formed ITN we are searching for 8 PhD students interested in basic and clinical aspects of Spinal Muscular Atrophy (SMA), a neurodegenerative disorder with multi-system aspects. The research program will focus on the description and analysis of novel intrinsic defects in peripheral organs and cells, the evaluation of molecular functions in selected organs, and translational approaches by designing treatment strategies for peripheral organs and identification of biomarkers. The training program pursued will include research training in the individual laboratories with regular exchange between laboratories for all PhD students, additional training courses and webinars. Partner members of the consortium are from the industry, private research entities, and patient organizations. Therefore, fellows will interact with relevant stakeholders in the area of rare diseases and especially SMA.

Candidates should have a solid basis for research in life sciences, bioinformatics, biomedicine or clinical medicine.

Applications (in one pdf file) including Letter of Motivation, CV, publication list (if available), copies of certificates, three preferences for projects (please, select and name reasons), and addresses of two referees should be sent to the SMABEYOND coordinator, Hannover Medical School, Hannover, Germany, under the email address: SMABEYOND@mh-hannover.de until January 19th, 2021.


PhD Scholarship in Bioinformatics

DTU Health Tech seeks qualified candidates for a PhD position in bioinformatics with apotential start date around June 2021. More specifically, the candidate will develop algorithms and computational methods to deal with the analysis of large datasets from modern and ancient sources. The bioinformatics section of DTU Health Tech performs research in the areas of different metagenomics, machine learning, cancer genomics and population genomics. Additional information should be obtained by contacting the potential main supervisor directly.

Qualifications
In terms of education, 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, ideally in computer science, mathematics or biological science with a focus on quantitative and mathematical aspects.

More specifically the candidate should ideally have the following qualifications:

  • Proficiency in C/C++ or Java or similar (C/C++ is preferred)
  • Knowledge of a scripting language like Python or Perl or similar
  • Ability to work in a UNIX environment, ideally in a high-performance computing environment
  • Thorough understanding of basic algorithms and data structures used in computer science
  • Knowledge of probabilities and statistics
  • Firm grasp of first-year university mathematics (differential calculus/linear algebra)
  • Experience in bioinformatics and knowledge of genomics are a plus
  • Expertise in next-generation sequencing data generation and processing are also a plus

The language of communication at DTU is English.

Please submit your online application no later than 1 January 2021 (local time).

For details click here


Posted on December 24, 2020

PhD position in computational biology

The Laboratory for the Research of Neurodegenerative Diseases headed by prof. Bart De Strooper is a vibrant environment where key issues related to Alzheimer’s disease are tackled. We are currently looking for a highly motivated Ph.D. candidate to join our multidisciplinary project on the cellular response to Alzheimer’s pathology (De Strooper and Karran, Cell, 2016). In this project, we will investigate data generated using Spatial Transcriptomics of an Alzheimer’s Disease mouse model (Chen and Lu, Cell, 2020) and integrate with both in-house and 3rd party multi-omics data. The goal is to create a detailed understanding of spatial and transcriptional changes of all relevant cell types around amyloid-beta plaques in a mouse brain. Detailed understanding hereof will yield new and more detailed hypotheses on how to approach AD in human patients.

Profile

Required

  • Master's degree in computational biology, biomedicine, genetics or equivalent.
  • Background, or demonstrable interest, in computational biology and data analysis
  • Strong interest in brain pathology and Alzheimer’s Disease
  • Critical mindset and a fast learner
  • Ability to collaborate in a multidisciplinary project with international and national partners in academia, industry and the clinics
  • Good time management and communication skills
  • Good mastery of English language

Appreciated

  • Knowledge of spatial and/or single-cell omics applications
  • Experience with image analysis and/or statistics
  • Knowledge of the genetics of Alzheimer’s disease

For more information: please contact mark.fiers@kuleuven.be ; Click here


EuReCa PhD Program - 12 PhD positions in September 2021 at Institut Curie (COFUND)

Institut Curie is recruiting 12 PhD students through its international program called EuReCa (Europe, Resarch & Care). This program, part funded by the European Commission’s MSCA COFUND scheme, provides PhD students with a 3-year doctoral contract, a high level interdisciplinary, inter-sectorial, as well as international training and coaching sessions with personalized career development plans, secondments and mentoring.

PhD research projects in life sciences cover Institut Curie’s main research domains:

✓ Biology & Chemistry of Radiations, Cell Signaling & Cancer

✓ Development, Cancer, Genetics & Epigenetics

✓ Integrative Tumour Biology, Immunology & Environment

✓ Multiscale Physics-Biology-Chemistry & Cancer

✓ Translational Research

Eligibility criteria

1. Early-stage researchers (ESR) shall at the call deadline be in the first four years (full-time equivalent research experience) of their research careers and have not been awarded a doctoral degree.

Full-time equivalent research experience is measured from the date when a researcher obtained the degree which would formally entitle him or her to embark on a doctorate.

2. Applicants may not have resided or carried out their main activity (work, studies, etc.) in France for more than 12 months in the 3 years prior to January 14th, 2021.

Time spent as part of a procedure for obtaining refugee status under the Geneva Convention, compulsory national service and/ or short stays such as holidays are not taken into account.

3. Applicants must be in possession of a European master degree or equivalent master’s degree which would formally entitle them to embark on a doctorate.

Selection process

Application deadline: January 14th, 2021 at 4:00pm (CET)

For details click here


Posted on May , 2020

PhD in RNA Computational Biology, Neuroscience and Comparative Genomics

PhD position is available for a highly motivated trainee in the field of Computational Biology/ Bioinformatics at Neurotranscriptomics Laboratory within the Garvan Institute of Medical Research in Sydney. Our research focuses on understanding how phenotypic complexity can arise during evolution, as well as how post-transcriptional regulation control neuronal function. Our work focuses on the role of alternative splicing, and other post-transcriptional mechanisms, in expanding gene and protein function. We are a multi-disciplinary lab and candidates will have opportunities to learn both wet and dry skills (depending on interest and experience).

Requirements for Computational Biology students:

The candidate should have experience in computational biology or bioinformatics. We are particularly interested in a candidate with a biological background. Expertise in analyzing RNA-seq, nanopore, scRNA-seq, CLiP-seq or ATAC-seq would be a bonus. International candidates with publication/s and/or a Master’s degree are encouraged to apply.

If you are interested, please send your c.v. and a cover letter explaining your interest to: r.weatheritt@garvan.org.au

For details click here


Doctoral (PhD) student position in medical science

The PaCaRes (Pancreas Cancer Research) lab is part of the department of Clinical Science, Intervention and Technology, division of Surgery. We focus on basic research within the translational program for pancreatic cancer with direct connection to the gastroenterology department of the Karolinska Hospital.

Pancreatic ductal adenocarcinoma (PDAC) has by far the poorest outcome amongst solid cancers. This dire situation is attributable to late diagnosis, lack of diagnostic biomarkers and almost complete resistance to conventional chemo- and radiation therapy. Although many very potent drugs have been successful in preclinical tests using conventional 2-D cell culture, almost every drug failed dramatically in the following clinical trials on pancreatic cancer patients. Culture of cells in 3D is much closer to in vivo growth than 2D culture of cells for many reasons. In recent years it has been demonstrated that growth and therapeutic response behaviour of cancer cells is greatly dependent of their microenvironment. We grow pancreatic cancer cells (monospheroid) alone or together with pancreatic stellate cells (heterospheroid) in 3D in order to learn more about their mutual dependencies and vulnerabilities.

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 2-827/2020

Last application date 20.Mar.2020

For details click here


Posted on February 28, 2020

PhD fellowship in the incubator for multidisciplinary research

At University of Copenhagen, three slots are open at the level of PhD student/postdoc to work within the Novo Nordisk Foundation funded Challenge Platform, focused on the combined data resources of the Danish Pathological Tissue Archives and the Danish Registries (www.dataforgood.science). The positions are open from 1 June 2020.

We invite highly qualified, thorough and motivated applicants to apply for positions at either PhD student or postdoctoral level. The candidates will be part of a research incubator (team of younger scientists) that will connect and mutually inspire, while applying different approaches, methodology, and disciplines to the investigation of the tissue biopsy data and the nationwide registers. Specific projects the candidates may be involved in include for instance risk stratification in fatty liver (using genetics and proteomics), but the Challenge Platform is open to suggestions and research topics highlighted in the application.

Qualifications
Highly motivated researchers with degrees in medical sciences, biostatistics, Public Health Science, computer science, high-dimensional data (bioinformatics or -omics), human biology, or proteomics. Candidates should have excellent communication skills and writing skills, and be interested in working in a multidisciplinary team. Furthermore, the right candidate will likely have experience within and knowledge of some of the following areas:

  • Medicine, pharmacology, proteomics or genomics
  • Bioinformatics and systems biology
  • Experience with databases and database architectures
  • Knowledge of biomedical resources and infrastructures
  • Skills in interdisciplinary research work
  • Healthcare system, terminologies and ontologies
  • Fluent English language skills

For details click here


PhD student in Neurobiology, epigenetics and Bioinformatics

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 60 nations, spread over 10 sites, the DZNE is one of the national and international leading research centers in its research field.

We are seeking an interactive and self-motivated PhD student to join a team of biologists and bioinformaticians working on nervous system pathophysiology led by Prof. Paolo Salomoni. Candidates must be able to work within a team environment and must be fluent in English with excellent communication skills. Prior experience in neuroscience, epigenetics, bioinformatics as well as molecular biology and analytical methods is considered an advantage for this project. Authorship on research articles is highly meriting, as is previous training in research laboratories.

A Master’s degree in Cell/Developmental Biology, Epigenetics or a related subject is also desired. This work will be conducted by Prof. Paolo Salomoni and his team whose main research interest is on chromatin regulation in CNS pathophysiology. In particular, this project aims at investigating the role of chromatin remodelling in regulation of cell identity/fate in normal brain homeostasis, aging and neurodegenerative diseases using a combination of mouse models and state-of-the art genomics and computational approaches.

Quote Reference: 1769/2020/2

For details click here


Posted on February 26, 2020

Doctoral fellow in Bioinformatics and Computational Genomics

The BIOBIX lab of Bioinformatics and Computational Genomics at the Faculty of Bioscience Engineering of Ghent University (Belgium) is looking for a highly motivated PhD student to join our forces as soon as possible (September 1st 2020 the latest). Allele-specific expression (ASE) is the generic term for the phenomenon where one of both alleles (in diploid organisms) is expressed to a higher extent than the other one. In health, ASE can be caused by several molecular phenomena, including genomic imprinting and random monoallelic expression. Some loci feature recurrent ASE in disease only, indicating that they are likely to be causally involved, independent of the fact whether the ASE observed is due to copy number variation, allele-specific (epi) mutations, … Despite major relevance in health and disease, common methods to comprehensively study ASE are typically very expensive, prone to artefacts, and blind to the type of ASE.

Profile of the candidate

As a candidate, you have/are:

• an MSc degree in Bioinformatics, Bioscience Engineering, Biochemistry and Biotechnology, Statistical Data Analysis, Biomedical Sciences or similar (or will have this degree by September 1st)

• proficient in scripting (e.g. Python) and biostatistics (R), experience with the statistical analysis of sequencing data and/or machine learning is a plus

• proficient in English, both written and oral

• acquainted with molecular biology

• a drive to answer biological questions by mining huge omics data sets

• an analytical, critical and independent attitude

Candidates should send their CV, a motivation letter (approx. 1 page) and the email addresses of two potential referees to prof. Tim De Meyer (tim.demeyer@ugent.be), by April 1st 2020 the latest. Applicants not meeting the criteria will not be considered.

For details click here


PhD candidate in Translational Immunology

Since being founded in 1815, Universitätsklinikum Erlangen has offered medicine of the highest standard and incorporated the latest insights from medical research and state-of-the-art equipment into diagnosis and therapy. More than 7,500 employees from approximately 50 different occupations are needed to provide the wide range of services offered by Universitätsklinikum Erlangen, ensuring our patients receive the very best care around the clock.

We seek a highly motivated and competitive candidate who is interested to perform comprehensive and in-depth spatiotemporal analyses of autoimmune responses using innovative technologies incl. single cell analyses (scRNAseq and scATACseq). The ideal candidate has a background in immunology and/or molecular biology as well as bioinformatics and basic knowledge in the programming language „R“. Experience with analyzing single cell or ATAC sequencing data would be a plus.

Qualification requirements:

  • Master’s (m/w/d) degree in biology, life sciences, bioinformatics or computer sciences
  • Interest in programming languages such as R
  • Experience with molecular biology methods and flow cytometry
  • Fluent knowledge of English
  • Theoretical knowledge of immunology and autoimmunity is desirable
  • Enthusiasm for translational research bridging basic immunology and human disease
  • Willingness to work in a team environment and to collaborate with other people

Please send your application (Cover letter, CV [education, positions and academic work], list of reference persons with contact details) by e-mail by 31.03.2020 at the latest to: Prof. Dr. med. Gerhard Krönke E-Mail: gerhard.kroenke@uk-erlangen.de

For details click here


Posted on February 24, 2020

PhD Candidate in Biophysics: Single-Cell Gene Expression Dynamics

The IMM is an interdisciplinary research institute in chemistry and physics at the Faculty of Science (FNWI) of Radboud University. IMM's mission is to perform fundamental research to understand, design and control the functioning of molecules and materials and to train the next generation of leaders in science and entrepreneurship to the highest international standards. You will have the opportunity to interact with the researchers at IMM and participate in institute-wide activities.

As a PhD candidate, your aim is to identify core programmes that impact on gene expression variability and ultimately cellular function. You will develop a screen that will identify cis-regulatory elements and a targeted approach to discern physical properties that govern gene expression dynamics in mammalian cells. In the first few months you will focus on getting to know the field, during which you will develop a more detailed project outline. Throughout the project, you will gain extensive proficiency in the most current cell-free biochemistry, sequencing, single-molecule and live-cell microscopy, and mathematical modelling techniques.

We ask

  • You have an MSc degree in life sciences (bioinformatics, molecular biology, biochemistry, biophysics, bioengineering or a related field).
  • Wet lab (i.e. mammalian cell culture, cloning) or computational (i.e. mathematical modelling, image analysis) experience.
  • An affinity for maths/computer sciences is advantageous.
  • You have strong communication skills and want to work in an interdisciplinary research team.
  • Excellent skills in written and spoken English.
  • You are creative with an analytical mindset and team spirit.

Please address your application to M.M.K. Hansen and submit it, using the application button, no later than 29 March 2020, 23:59 Amsterdam Time Zone.

For details click here


Doctoral (PhD) student position in Translational Microbiology

The Department of Laboratory Medicine consists of 7 divisions and is active in many areas of Laboratory Medicine. The department is involved in advanced basic scientific, clinical and epidemiological research. The department is one of the largest departments of education at Karolinska Institutet.

At the department of Clinical Microbiology, disease processes in cells and tissues caused by microbes infecting humans are studied. The research is translational with focus on problems identified in clinical care and on the development of improved diagnostics and therapeutic approaches. The research spans from molecular virology, virus-cell interactions and the understanding of individual viral genes and proteins, to the effects these have on the infected patient. Within bacteriology, the effects of antibiotics on the gut microbiota are studied as well as the interaction between bacteria and protozoa.

The doctoral student project and the duties of the doctoral student
In the planned PhD-project we want to expand on previous findings in our laboratory and study how stress affects the innate immune-system, including AMP-expression, autophagy and susceptibility to infections.
We aim to study -
1) how chronic stress impacts autophagy, premature cellular aging and AMP-expression,
2) how chronic stress can lead to reduced killing of intracellular bacteria and viruses and
3) we will study the molecular mechanism of how novel drug-like compounds developed by us can restore the activity of autophagy and mediate intracellular killing of bacteria in stressed cells.

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 2-804/2020

Last application date 13.Mar.2020 11:59 PM CET

For details click here


Posted on February 21, 2020

15 PhD positions in the ENHPATHY Innovative Training Network

ENHPATHY is a multidisciplinary science consortium created in the frame of the Marie Sklodowska-Curie actions (MSCA)-ITN-ETN European Training Networks call and regrouping 12 academic and 3 non-academic European organisations in the continuum of basic, translational and clinical research on enhancers and associated diseases.

15 positions are available for a 3-year PhD program at institutions across Europe. Positions are funded by the new Marie Sklodowska-Curie Innovative Training Network (ITN) ENHPATHY. Candidates with bioinformatics, genomics and/or molecular and cellular biology backgrounds are encouraged to apply.

Eligibility criteria:

1. Applicants can be of any nationality.
2. They must fulfill the mobility rule, i.e. have resided or carried out their main activity (work, studies, etc.) in the country of the host organization for no more than 12 months in the 3 years immediately before the recruitment date.
3. They must also fulfill the Early Stage Researchers (ESRs) rule, i.e. be within their first four years (full-time equivalent research experience) of their research careers at the date of recruitment by the host organization and have not been awarded a doctoral degree.
4. They must hold a Master’s degree (MSc) in biology, biochemistry, bioinformatics, biophysics, biotechnology, medicine or any other related discipline.
5. A high proficiency in spoken and written English is required.

Recruitment period : March 15th, 2020 – April 16th, 2020

For details click here


PhD student / Bio-informatician in computational protein modeling

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 computational protein modeling.

Job Profile

You will perform research on drug/protein interaction analysis in the context of lung cancer, using computational protein modeling. You will implement existing models predicting drug efficacy, related to EGFR-driven cancer. You will translate these models to novel oncogenes, including ROS1. You will validate these models against experimental data from a parallel project, with the final goal of deployment of your methods into clinical decision making. Your work will be embedded in an international network consisting of both academic partners and ROS1-NSCLC patient organizations.

Requirements

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 protein modeling. You have good experience with Linux and one or more programming languages as well as knowledge of tertiary structure analysis. Candidates with a Master degree in one of the life sciences (Biomedical sciences, Biochemistry, Bio-engineering, Biostatistics, …), with relevant interest and extended experience in this field are also welcome. A general background cancer biology and genetics is needed.

For additional information please contact dr. Geert Vandeweyer. To apply, send a copy of your CV including details of your relevant skills and a motivation letter by e-mail to dr. Geert Vandeweyer (geert.vandeweyer@uantwerpen.be) before March 15, 2020.

For details click here


Posted on February 19, 2020

PhD scholarship in Whole Genome Sequencing and Machine Learning for Improving Food Safety

Identification of bacteria is crucial, as different measures and actions will be taken whether food pathogens are detected, mostly at genus or species level. However, the identification techniques used today are time-consuming, and more importantly lack the resolution to differentiate between strains of the same species. Such strain-level diversity could affect the recognition of the risk level and decision of consequent actions. Certainly, these limitations can be resolved by whole-genome sequencing (WGS) technology. The lack of genetic insight and access to advanced computing facilities is a major hurdle for food industry to apply WGS technology in practice. A smart tool to predict virulence level and resistance to disinfectants is needed for frontline safety/quality assurance practice.

Responsibilities and tasks

  • You will be responsible for characterization and analysis of Listeria monocytogenes genomes and developing machine learning model to predict virulence level and disinfectant-resistance in L. monocytogenes strains.
  • You will engage in developing web-based tool for food industrial users to predict the virulence and disinfectant-resistance of L. monocytogenes genomes in real-time.
  • You will communicate research results by presenting data at project meetings and international conferences, and write manuscripts for publication. The day-to-day work will be performed in close collaboration with other researchers in the Genomic Epidemiology group and with national and international partners including food industrial partner associated with the project. Collaboration includes active participation in national and international meetings and conferences, sharing of data and results, contribution to joint publications.

Qualifications

Candidates should have a two-year master's degree (120 ECTS points) in bioinformatics or a similar degree with an academic level equivalent to a two-year master's degree. Preferably the candidates with machine learning experience or similar.

Please submit your online application no later than 26 March 2020 (23:59 local time).

For details click here


PhD Student in Data science of bioimages

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.

Your responsibilities will include:

  • Analysis of large-volume and multi-modal biological data
  • Implementation of computational pipelines including existing machine learning methods
  • Development of new analytical and ML solutions dedicated to resolving specific biomedical problems
  • Communication with medical and experimental collaboration partners

Minimum qualifications:

  • MSc degree in computer science, physics, bioinformatics, or a related field
  • Good knowledge of programming (python, R)
  • Experience with computation on cluster architectures
  • Experience with machine learning is preferred
  • Great communication skills, capacity of working in a team and in an interdisciplinary environment

We prefer online applications, but you also have the opportunity to apply via regular mail by 15. March 2020.

For details click here


Posted on February 17, 2020

PhD student "Computational method development for Tuberculosis drug resistance based on proteomics"

The Institute of Computational Biology 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. The Menden Lab is currently looking for a Postdoctoral fellow or PhD student (f/m/d) in "Computational method development for Tuberculosis drug resistance based on proteomics"

The Postdoctoral fellow or PhD student will focus on studying drug mechanisms in Tuberculosis (TB) based on proteomic profiles. TB is the deadliest infectious disease in humans and kills around 1.5 million people a year. Successful therapy is associated with long treatment and often severe side effects, and it is complicated by the widespread resistance mechanisms of the bacterial pathogens. The Postdoctoral fellow or PhD student will collaborate with world leading experts in tropical medicine (Prof. Dr. Michael Hölscher), molecular biology (PD. Dr. Andreas Wieser) and Artificial Intelligence (Prof. Dr. Dr. Fabian Theis). A novel experimental technique has been developed by our collaborators at the Ludwig-Maximilians-Universität München, which enables for the first time to dynamically measure the formation of many biomolecules in mycobacteria. This creates the prerequisite for examining the change in the pathways of the pathogen during the treatment. We are looking for a candidate who investigates the dynamic data and models the mode-of-action with the help of artificial intelligence and systems biology in order to gain a better understanding of the pathogen, to overcome resistance and to ultimately predict effective drug combinations.

Your Qualifications for Postdoctoral fellow position:
- Ph.D. in Bioinformatics, Biostatistics, Biophysics or equivalent with interest in TB and early drug development. Alternatively, a Ph.D. in Biotechnology, Biology or equivalent with significant experience and interest in Bioinformatics / Biostatistics.
- Excellent programming skills in R and Python.
- Excellent experience in either machine learning or biostatistics.
- Excellent understanding of one infection disease (preferably TB).
- Excellent academic record.
- Expertise in proteomics analysis
- Scientific curiosity, commitment to scientific excellence and ability to work independently.
- Leadership skills and enthusiasm to co-supervise PhD students.
- Highly motivated 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.

PhD fellowship on biomedical text mining

The Cellular Network Biology group (www.cpr.ku.dk/research/disease-systems-biology/jensen/) led by Professor Lars Juhl Jensen has strong expertise in text mining of the biomedical literature, whereas the Translational Disease Systems Biology group (www.cpr.ku.dk/research/disease-systems-biology/brunak/) led by Professor Søren Brunak focuses on analysis of many diverse types of patient-level data.

The PhD fellow will develop advanced text-mining methods and apply them to a 20+ million full-text articles to identify life-style descriptors in text and associate them with diseases. In collaboration with other members of the groups, the PhD fellow will subsequently use the resulting knowledge graph to interpret patient-level data on the progression from healthy to sick from electronic health records and registry data.

Qualifications and key criteria for the assessment of applicants
Candidates for the fellowship must hold an MSc degree (or equivalent) within a relevant discipline and have strong programming experience. The successful candidates will have strong qualifications or experience within several of the following areas:

  • Text mining.
  • Bioinformatics / computational biology.
  • Machine learning.
  • Statistical data mining.
  • Biomedical ontologies.
  • Programming in Python.

Application deadline: 1 March 2020, 23.59 p.m. CET.

For details click here


Posted on February 14, 2020

PhD student in Cancer and Oncology

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.

Work assignments
We are looking for an ambitious and well-organised PhD student to study the biological and clinical impact of genetic variation in breast cancer with specific focus on synonymous variants. The project involves bioinformatic analyses of large next-generation sequencing datasets, including variant calling and gene expression analysis, as well as experimental work using cell line models and standard molecular biology techniques.

Qualifications
Applicants should fulfil the basic eligibility requirements for the Faculty of Medicine (see https://www.medicine.lu.se/study/phd-programme/prospective-phd students/entry-requirements) with a degree in a relevant subject such as molecular biology, biomedicine or biotechnology and documented training in bioinformatics.

Reference number PA2020/523

Last application date 04.Mar.2020 11:59 PM CET

For details click here


PhD scholarship in Whole Genome Sequencing and Machine Learning for Improving Food Safety

Identification of bacteria is crucial, as different measures and actions will be taken whether food pathogens are detected, mostly at genus or species level. However, the identification techniques used today are time-consuming, and more importantly lack the resolution to differentiate between strains of the same species. Such strain-level diversity could affect the recognition of the risk level and decision of consequent actions. Certainly, these limitations can be resolved by whole-genome sequencing (WGS) technology. The lack of genetic insight and access to advanced computing facilities is a major hurdle for food industry to apply WGS technology in practice. A smart tool to predict virulence level and resistance to disinfectants is needed for frontline safety/quality assurance practice.

Responsibilities and tasks

  • You will be responsible for characterization and analysis of Listeria monocytogenes genomes and developing machine learning model to predict virulence level and disinfectant-resistance in L. monocytogenes strains.
  • You will engage in developing web-based tool for food industrial users to predict the virulence and disinfectant-resistance of L. monocytogenes genomes in real-time.
  • You will communicate research results by presenting data at project meetings and international conferences, and write manuscripts for publication. The day-to-day work will be performed in close collaboration with other researchers in the Genomic Epidemiology group and with national and international partners including food industrial partner associated with the project. Collaboration includes active participation in national and international meetings and conferences, sharing of data and results, contribution to joint publications.

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

Please submit your online application no later than 26 March 2020 (23:59 local time).

For details click here


Posted on February 12, 2020

Doctoral researcher (PhD student) in Bioinformatics / Machine Learning 

The University of Luxembourg is a multilingual, international research university. The University of Luxembourg has the following vacancy in the Luxembourg Centre for Systems Biomedicine (LCSB):

We seek a highly motivated bioinformatician (MSc level) who is experienced in the analysis of large-scale biomedical omics data, using statistical methods and machine learning, and bioscientific data processing and programming. The candidate will conduct integrative machine learning analyses of biomedical data, focusing on molecular and clinical data for neurodegenerative diseases. This will include the development of new automated machine learning approaches (AutoML), the application of software to disease-related multimodal omics data, and the joint interpretation of the data together with experimental and clinical collaborators. The project will use new biological high-throughput data from patients, healthy controls, as well as in-vitro and in-vivo disease models.

Your Profile

• The candidate will have a MSc or equivalent degree in bioinformatics, computational biology, or biostatistics / machine learning
• Prior experience in large-scale data processing and statistics / machine learning is required
• A track record of previously completed courses and/or publications involving analyses of large-scale biological data (e.g. omics, neuroimaging data) should be outlined in the CV
• Demonstrated skills and knowledge in next-generation sequencing data analysis, biostatistics, machine learning, pathway and network analysis are highly advantageous
• The candidate should have a cross-disciplinary aptitude, strong organizational and interpersonal skills, and a keen interest in collaborative biomedical research
• Fluency in oral and written English

Ref: 50016105

For details click here


Two PhDs in the field of Mucosal Immunology

The Institute of Molecular Medicine at RWTH Aachen University has an opening for Two PhDs (m/w/d) in the field of Mucosal Immunology Both positions are part time positions (65%; 25,03 h/w) and offered on a temporary contract (project-related) for three years. The successful candidate has the opportunity to pursue a doctoral degree. The salary corresponds to level 13 TVL. The start date for these two positions is as soon as possible.

Immune responses are regulated by organ crosstalk. Changes in the gut immune system and the microbiota affect liver functions, and conversely, liver function affects intestinal immunity. We focus on the role of the adaptive immunity in these interactions. Our first project will center around T cells in gut and liver. In this project you will dissect how gut regulatory T cells regulate the tumor environment, prevent cytotoxic T cell function and thereby favor tumor growth and metastasis formation in the liver. Our second project emphasizes the function of B cells and antibodies in gut liver crosstalk. You will use cutting-edge sequencing technology to analyze B cell immune repertoires to understand interaction between antibodies and the microbiota.

Your Profile

  • You have a MSc degree (or equivalent) in biology, biochemistry or a closely related subject.
  • You have a strong interest in mucosal immunology.
  • You have practical experience in basic lab techniques. Experience with animal models (mice), flow cytometry and/or bioinformatics will be an advantage.
  • You are highly motivated, engaged and excited to work in an international team.
  • You are proficient in spoken and written English.

For details click here


Posted on February 10, 2020

Doctoral Researchers: 9 Fully Funded Positions in Data Science & Health

The German Cancer Research Center, Karlsruhe Institute of Technology and Heidelberg University are committed to increase the percentage of female scientists and encourages female applicants to apply. Among candidates of equal aptitude and qualifications, a person with disabilities will be given preference.

Do you want to bring artificial intelligence (AI) and data science to the forefront of health research? The Karlsruhe Institute of Technology is a top-ranked computer science university and Helmholtz research center. The German Cancer Research Center is the largest biomedical research institution in Germany with leading research in health data sciences. The Heidelberg University is the oldest university in Germany with a leading university clinic and excellent track record in scientific computing. These three top institutions joined to tackle this thrilling area by providing a unique doctoral program.

Requirements:

We are looking for excellent graduates holding master degrees, received by July 2020 at the latest, in computer science, mathematics, engineering, physics or related quantitative sciences (e.g. bioinformatics or medical informatics).

Code number: 2020-0004

Application Deadline: 17.02.2020

For details click here


Doctoral (PhD) student position, Immune Response in Chronic Viral Infection

The Department of Laboratory Medicine consists of 7 divisions and is active in many areas of Laboratory Medicine. The department is involved in advanced basic scientific, clinical and epidemiological research. The department is one of the largest departments of education at Karolinska Institutet. The research group The research group headed by Associate Professor Annika Karlsson studies how to achieve optimized treatment of HIV in perinatally infected children, pregnant women, adults, and in HIV-associated cancers. We are the link between immune response and health in treated HIV-infection. The group contains immunological, infectious disease, microbiology, obstetric and paediatric skills with major national and international networks.

The doctoral student project The CD4 and CD8 T cells are an important part of the adaptive cellular immune system in both cancer and chronic infection becomes highly dysfunctional during an HIV-infection. This process is usually known as T cell exhaustion. Reports of the long-term consequences of ART in adults still reveals an increased risk of cancer, autoimmunity, cardiovascular diseases, diabetes, among other disorders. A leading cause of adverse health effects are persistent immune exhaustion of the cellular immune system despite ART.

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 2-656/2020

Last application date 16.Mar.2020 11:59 PM CET

For details click here


Posted on February 07, 2020

PhD student position in bioinformatics with applications to antibiotic resistance

Information about the Department of Mathematical Sciences and University of Gothenburg The Department of Mathematical Sciences at Chalmers University of Technology and the University of Gothenburg has about 200 employees and is the largest department of mathematics in Sweden. The department conducts successful research in pure and applied mathematics and mathematical statistics in a wide range of research areas.

We have an open PhD position in bioinformatics/computational biology with a focus on the analysis of large-scale data. The research project is centered around DNA sequence analysis with special emphasis on the identification of new forms of bacterial genes that make bacteria resistant to antibiotics, which is one of the main threats to human health globally. The project also includes phylogenetic analysis and development of methods for assessment of gene evolution. The position is a part of Chalmers graduate school in bioscience and the Environmental Dimensions of Antibiotic Resistance (EDAR) research project aiming to describe the environmental role in the development and promotion of antibiotic resistance.

Qualifications Candidates to this position must have obtained an M.Sc. degree in bioinformatics, mathematical statistics, mathematics, computer science, physics, molecular biology or any equivalent topic or expect to complete such a degree by September 1, 2020. Previous experience of analysis of DNA sequence data is desirable. Candidates should also have good computing and programming skills (e.g. Perl/Python, R, C/C++ ) and, preferably, previous experience of the UNIX/LINUX computing environments. The candidate should also show strong communication skills, both written and orally.

Application deadline: 6th March, 2020

For details click here


Computational PhD position on the role of synonymous mutations in cancer

The laboratory for Disease Mechanisms in Cancer (KU Leuven, Belgium, www.LDMC.be) is looking for a motivated PhD researcher. Many labs, including ours, have performed exome and transcriptome sequencing on large series of tumor samples with the aim to discover cancer driver mutations. In most studies, only mutations that cause amino acid changes are considered, assuming that synonymous mutations in protein coding regions are meaningless. Nevertheless, several experimentally tested synonymous mutations have been ascribed a causative role in disease. Our data support that synonymous nucleotide changes can enhance gene expression and cell transformation via novel mechanisms, independent of splicing, and hence we hypothesize that the role of synonymous mutations in cancer is underestimated.

The PhD student will be involved in developing bioinformatics and statistics approaches to delineate the landscape of synonymous driver mutations in publically available cancer genomics datasets. Mutational effects on functional DNA or RNA elements will be assessed and integrated in a ranking of mutations according to their likeliness to be cancer drivers. Top candidate driver synonymous mutations will be experimentally tested for effects on gene expression and cancer cell behavior by colleagues in the lab, with special attention for mutations that are expected to affect novel modes of protein translation dysregulation, as our lab has extensive expertise in this field.

Profile

  • You obtained a Master’s level degree in bioinformatics, biostatistics, computer science, or a related degree. We also value candidates with a biological/biomedical degree with a strong interest in bioinformatics.
  • You obtained good grades during your training.
  • Experience with computational biology such as -omics data analysis, pathway and network analysis.
  • The candidate should be experienced in Matlab, R, and Python with machine learning applications.
  • Familiarity with Unix command line.
  • Strong interest in cancer biology and knowledge of molecular biology.
  • You are fluent in English, both written and spoken.

For details click here


Posted on February 05, 2020

PhD position - Modeling / Virus Dynamics / Systems Biology

The Max Planck Institute offers excellent research opportunities in a stimulating and friendly environment. Salary and benefits are commensurate with TVöD-Bund. The Max Planck Society is committed to increasing the number of individuals with disabilities in its workforce and therefore encourages applications from such qualified individuals. Furthermore, the Max Planck Society seeks to increase the number of women in those areas where they are under-represented and therefore explicitly encourages women to apply.

The Bioprocess Engineering Group develops mathematical models to describe animal cell culture-based virus production for vaccination and gene therapy. This includes comprehensive experimental data sets generated in our laboratories addressing virus-host cell interaction at the single cell and the cell population level. In the project planned, the candidate analyzes the information available and explores influenza A virus replication, defective interfering particle (DIP) formation, and DIP/standard virus co-infection in cell cultures using sophisticated mathematical models as well as advanced systems biological tools. We seek for a candidate with a master's degree in biosystems engineering, biotechnology, computational biology or related engineering and natural science disciplines. Knowledge about model construction, model simulation and model analysis as well as solid experience with programming languages (MATLAB, C++) is appreciated. Moreover, the ideal candidate is highly motivated to work efficiently, self-directed and as part of an interdisciplinary team on scientific challenges.

Requirements:

  • above-average Master’s degree in bioprocess engineering, biotechnology, computational biology/systems biology, or similar
  • profound theoretical knowledge and programming skills
  • solid background on the molecular biology of animal cells and viruses
  • competence in bioprocess engineering
  • the ability to work in a team, and the ability to present the project and the results in an international environment in English.

Please submit your application documents (reference number BPE_2020/1 including a CV, employer’s / personal references, and copies of the Master’s and high school certificates) only via e-mail to: Prof. Dr.-Ing. Udo Reichl E-mail: sek-bpe@mpi-magdeburg.mpg.de

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PhD Scholarships x 2 in Fragment-Based Design

The Griffith Institute for Drug Discovery (GRIDD) is a world-class research facility, with a focus on early stage and pre-clinical drug discovery. GRIDD has a number of key research areas, including cancer, infectious diseases, Parkinson's disease, drug resistance and spinal cord injury repair. Innovating at the cutting-edge of both chemistry and biology, GRIDD has formed collaborations with governments, academia, industry and communities to create knowledge that transforms lives.

We are looking to invite motivated, curious, and creative PhD applicants to apply for a PhD candidature and scholarship in the Australian Research Council Training Centre for Fragment-Based Design (CFBD) The successful applicants will be working in a multidisciplinary research team, where together with our research partners we are working to discover small molecules that modulate protein targets involved in a range of conditions including cancer, infection, bacterial resistance and metabolic disease. The CFBD is a collaboration between researchers at Monash University, Griffith University, and The University of Sydney. The Centre fosters close partnerships between our university-based researchers and industry-based research end-users to provide transformative research programs and innovative training in FBD. The strategy of FBD involves screening libraries of small chemical compounds or 'fragments' that, owing to their size, generally bind with relatively low affinity and then elaborating these to produce larger, higher affinity ligands (or hits). The CFBD projects based at Griffith University are supported by industry partners CSIRO and Takeda California Inc. You will develop a number of skills related to therapeutic drug discovery, including aspects of small molecule and protein chemistry and state-of-the-art protein mass spectrometry.

Applicants will have:

  • A Bachelor's Degree with First Class Honours (or equivalent)
  • A passion for research, with a strong desire to develop a career in drug discovery
  • Proven ability for analytical thinking and critical problem solving
  • High attention to detail
  • Excellent time management skills
  • Ability to work independently as well as with other researchers as part of a team
  • An interest in and/or experience with working with industry partners
  • Previous experience in protein mass spectrometry , protein expression chemistry and/or biochemistry
  • Fluency in written and oral English

For details click here


Posted on February 03, 2020

PhD fellow positions in Protein Structural Bioinformatics

Three or more PhD scholarships are available from June 1st, 2020, or as soon as possible thereafter, in the PRISM centre, Department of Biology, Faculty of Science, University of Copenhagen, Denmark. The research within PRISM bridges protein biophysics and genomics using computational and experimental methods. The PhD projects in this call are focused on computational modelling and data analysis aspects of PRISM, within the research areas of structural bioinformatics of proteins, large-scale analysis of protein-protein interactions, and biological sequence analyses.

The positions are part of the recently established Centre called PRISM: Protein Interactions and Stability in Medicine and Genomics, funded via a six-year Novo Nordisk Foundation Challenge grant. PRISM is a collaboration between three research groups at the Department of Biology, Copenhagen (led by Kresten Lindorff-Larsen, Amelie Stein, Rasmus Hartmann-Petersen), and Michele Vendruscolo (University of Cambridge, UK), Douglas M. Fowler (University of Washington, US) and Torben Hansen (Novo Nordisk Foundation centre for Basic Metabolic Research, DK).

Formal requirements 
We are seeking motivated and strong applicants with a MSc degree in bioinformatics, biophysics, physics, chemistry or biochemistry or similar fields with prior research experience (e.g. MSc projects) within one or more of these areas:

•    Structural bioinformatics
•    Computational analyses of the effects of protein sequence variation on protein stability, interactions and function
•    Biological sequence analysis
•    Computational analyses of high-throughput experiments

Application deadline: 01-03-2020

For details click here


PhD Studentship: Interactions between cancer-associated fibroblasts and immune cells

The Experimental Pathology Group offers a PhD studentship in cancer biology, leading to a PhD degree from the University of Southampton. The project aims to develop new approaches for cancer therapy, and explores the role of the tumour microenvironment in suppressing response to immunotherapy, particularly how cancer-associated fibroblasts inhibit the ability of the immune system to recognise and kill cancer cells. The questions under investigation will require the use of a broad range of cell culture and molecular biology techniques, cell-based functional assays, RNA sequencing and bioinformatics, analysis of human cancers, and the use of mouse models.

You should enter Professor Gareth Thomas as your proposed supervisor. To support your application provide an academic CV (including contact details of two referees), official academic transcripts and a personal statement (outlining your suitability for the studentship, what you hope to achieve from the PhD and your research experience to date). Informal enquiries relating to the project or candidate suitability should be directed to Professor Gareth Thomas (g.thomas@soton.ac.uk).

Closing date: 21/02/2020

For details click here


Posted on January 31, 2020

13 PhD positions in interdisciplinary life science/bioinformatics

MeBio is a PhD research training group at the University of Freiburg and the Max Planck Institute of Immunobiology and Epigenetics Freiburg. It aims at a dual education in bioinformatics and wet laboratory methods to explore the spatio-temporal dynamics of gene regulation using high-throughput and high-resolution methods. For the start of the second generation of PhD students in September, 2020, MeBio is now accepting applications to 13 PhD positions in interdisciplinary life science/bioinformatics Research Training Group.

We are looking for junior researchers with expertise either in life sciences (molecular biology, cell biology, molecular medicine, biochemistry), or in bioinformatics/ informatics/ statistics. Our dual education profile requires a strong interest for training in the respective other field.

We offer:

  • exciting modern research projects in well equipped laboratories using state-of-the-art technologies (stem, cancer and prokaryotic cells, single cell and high-throughput sequencing, high-resolution imaging, bioinformatics)
  • tandems between wet laboratory and bioinformatics groups with an extensive stay in the lab of the respective other field
  • different model organisms for conceptual learning and scientific exchange
  • professional and efficient supervision secured by a thesis advisory committee
  • regular courses in bioinformatics and wet laboratory techniques
  • additional “soft skills” courses and gatherings of all research training group members for scientific exchange

Candidates should:

  • have an excellent recent university degree in one of the fields mentioned above
  • be passionate about science and highly motivated
  • have a strong affection to acquire both, biological and informatics knowledge
  • be fluent in written and spoken English

For details click here


PhD fellowship in “Bacterial Pathogenesis and Antibiotic Resistance”

Antibiotic resistance is one of the greatest challenges to human health, and at the Department of Veterinary and Animal Sciences (IVH) we have for many years studied antibiotic resistance in bacteria causing disease in humans and animals. The position will be based in the research group of Dorte Frees that do research dedicated to unravel the molecular mechanisms underlying bacterial pathogenesis and antibiotic resistance. We aim to identify novel targets that can be used to dis-arm bacteria by either restoring antibiotic sensitivity, or by preventing production of central virulence factors. The project is carried out in close collaboration with Søren Persson and Eva Møller Nielsen at Statens Serum Institut (SSI) that study the epidemiology of bacterial pathogens, and the candidate must expect to work partly at SSI (Copenhagen).

Clostridioides difficile (formerly Clostridium difficile) is a toxin-forming bacterium causing severe antibiotic-associated diarrhea with high mortality. In the project “Zoonotic spread of multi-resistant Clostridioides difficile” we wish to investigate the prevalence of antibiotic resistant C. difficile in life-stock in order to assess the potential for spread of the bacterium from life-stock to humans via food. The project aims at isolating C. difficile from veterinary sources, analyze the bacteria by whole genome sequencing and use bioinformatics sequence analysis to investigate phylogeny/relatedness of human and veterinary isolates.

Application deadline: 1 March 2020, 23.59pm CET

For details click here


Posted on January 29, 2020

PhD Student in Bioinformatics / Biostatistics

The German Cancer Research Center is committed to increase the percentage of female scientists and encourages female applicants to apply. Among candidates of equal aptitude and qualifications, a person with disabilities will be given preference.

We are looking to strengthen our team with a PhD student (bioinformatics/biostatistics) to develop novel computational methods to analyze single cell sequencing data. The project's main goal is the integration of single cell sequencing datasets from different modalities (transcriptome, methylome, open chromatin). The project offers opportunities to work with several cutting-edge next-generation sequencing platforms (Illumina, 10X genomics) and state-of-the-art bioinformatics packages (Seurat3, MOFA, Scanpy). The team is international and multidisciplinary in a lively and friendly working atmosphere, with a state-of-the-art computational infrastructure. The position is funded by the "Methods in Lifesciences" network, which provides additional opportunities for training and career development.

We are looking to expand our team by a dedicated and strongly motivated scientist with a distinct interest in the challenges of single cell sequencing data analysis. Applicants should hold a master's degree in bioinformatics, biostatistics or related fields, with a solid background in the application of sequencing-based bioinformatic tools. Demonstrable skills in programming and biostatistics (e. g. Python, R) and in a Linux computing environment are required. Candidates also must have strong communication skills and the ability to work in a team.

Application Deadline: 18.02.2020

Code number: 2020-0022

For details click here


Funded PhD Studentship in genetic analysis of human obesity

The Division of Biosciences at Brunel University London is offering a fully funded PhD studentship to investigate the genetic architecture of obesity and related conditions within the group of Prof Alex Blakemore. Based in the College of Health and Life Sciences and funded by Brunel University London, the studentship offers an annual London rate stipend of £17,009 plus Home/EU tuition fees, for a maximum of 36 months.

New big-data resources, such as the UK Biobank and the China Kadoorie Biobank (each with genetic and health information from half a million people) are transforming the way we do human genetics. When coupled with clinical collections of people with extreme phenotypes, we have opportunities to look at the separate and combined effects of rare mutations and common genetic variants with unprecedented power. For this research project, the successful candidate will join a thriving team examining the genetics underpinning human obesity and related conditions. Obesity is a rising global problem with a number of important consequences for health: for example, a full 10% of the NHS drugs budget is used for type 2 diabetes, which is strongly related to obesity.

Candidates should have an undergraduate degree (first or upper second class) or equivalent qualification in Bioscience or equivalent disciplines. Laboratory experience is essential and familiarity with R and genome analyses is desirable. Applicants who have not been awarded a degree by a University in the UK will be expected to demonstrate English language skills to IELTS 7.0 (minimum 6.0 in any section).

If you wish to apply, please e-mail the following to chls-pgr-office@brunel.ac.uk by 14 Feb 2020.

For details click here


Posted on January 27, 2020

PhD student in Primate Speciation and Population Genomics

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

The selected candidate will mainly engage in large-scale phylogenomic and population genomic analyses that require solid bioinformatics skills, but will also conduct work in the wet lab to produce genomic sequencing data from non-invasively collected low-quality samples. Duties include active participation in the research group activities, training of junior group members in relevant techniques and engagement in collaborative projects.

To be eligible for a PhD-student position the applicant must hold a master degree (or equivalent) in evolutionary biology, bioinformatics, or a related field. The technical skills of the candidates will be evaluated based on the experience with large-scale sequence analysis, bioinformatics proficiency and experience with phylogenomic and population genomic studies. The ideal candidate will have a strong interest and documented knowledge in evolutionary biology, with a drive to understand processes shaping species diversity. Perseverance and high intrinsic motivation are required to work on non-model organisms using difficult samples and data. You will be highly reliable, driven and well-organized, curious and willing to think outside the box, with the ability to quickly acquire new skills. Candidates must be able to express themselves well in spoken as well as written English.

Number of reference: UFV-PA 2020/247

Last application date: 2020-02-24

For details click here


PhD Studentship - Investigating mitochondrial derived vesicles

The University of Southampton and the School of Biological Sciences both hold an Athena Swan Silver Award, demonstrating their commitment to provide equal opportunities and to advance the representation of women in STEM/M subjects: science, technology, engineering, mathematics and medicine. Due consideration will be given to applicants who have taken a career break. University benefits include onsite childcare facilities, state-of-the-art on-campus sports, arts and culture facilities, a full programme of events and a range of staff discounts.

Applications are invited for a fully funded PhD studentship aimed at investigating the cellular mechanisms of a mitochondrial repair pathway with broad implications in many conditions from Parkinson's to cardiomyopathies. This studentship project will particularly investigate how a specific adaptor protein complex regulates the trafficking of damaged mitochondrial cargo, via small mitochondrial derived vesicles, to the lysosome. This will involve interrogating the function of key protein complexes implicated in regulating mitochondrial derived vesicles and determining their relationship to the machinery that regulates cargo transfer within the endosomal system.

The PhD candidate will gain experience in cell biology approaches, combining molecular biology, biochemical and advanced microscopy techniques in both established cell lines and primary neurons to investigate the mechanisms of mitochondrial quality control. The project will also use siRNA and gene editing techniques, such as CRISPR-Cas9, to interrogate protein function and use localisation studies to understand spatiotemporal regulation of these processes. Alongside laboratory skills, the PhD candidate will gain experience in presentation skills, writing for publication, as well as a number of postgraduate courses offered in Biological Sciences at the University of Southampton.

Closing Date:  Friday 06 March 2020
Reference:  1233320BJ

For details click here


Posted on January 24, 2020

Joint-PhD student positions in Plant Science in the MelPoPP program

The University of Melbourne (UoM), Max Planck Institute of Molecular Plant Physiology (MPI-MP), and the University of Potsdam (UP) are currently recruiting PhD candidates/ graduate research students for the Melbourne-Potsdam PhD Programme (MelPoPP).

MelPoPP is a joint-PhD program that provides a unique international research training experience and the opportunity for candidates to obtain a joint-PhD (two testamurs) from UoM and UP. Candidates will spend time in Australia and in Germany, co-supervised by leading academics at UoM’s School of BioSciences, UP’s Institute of Biochemistry and Biology; and at MPI-MP. Joint research projects focus on modern plant science encompassing topics such as as the circadian clock, sugars and cell wall synthesis, computational analysis of plant cells and plant root performance.

We are looking for highly motivated students who can tackle scientific problems in modern plant biology. Candidates must:

  • hold an MSc or equivalent degree in biology, biochemistry, bioinformatics, chemistry, physics, mathematics or a related field that includes a substantial research component, with excellent or very good results ( weighted average mark, WAM, or grade point average, GPA, of at least 80% or equivalent).
  • meet the UoM English language requirements for Graduate students at the Faculty of Science with the submission of a recent TOEFL or IELTS test with the application.

Applications will be accepted until February 05, 2020.

For details click here


PhD Positions to Study Adipocyte and Hepatic Cellular Plasticity

The Center for Functional Genomics and Tissue Plasticity (ATLAS) at the Functional Genomics & Metabolism Research Unit, Department of Biochemistry and Molecular Biology, University of Southern Denmark, invites applications from outstanding candidates who are interested in joining our team as PhD students. One of the PhD students will be affiliated with the Mandrup Group, the other will be affiliated with the Grøntved Group. The positions are available from 1 June 2020 or as soon as possible thereafter.

Center for Functional Genomics and Tissue Plasticity (ATLAS) at the University of Southern Denmark is supported by the Danish National Research Foundation. The aim of ATLAS is to obtain systems-level, mechanistic and cell type-resolved understanding of adipose and hepatic tissue plasticity in response to diet-induced obesity and regression in mouse models; and to translate this for in-depth understanding of the functional changes in human adipose and hepatic tissues in response to severe obesity and reversal. The centre applies a combination of functional genomics approaches including single cell sequencing, mouse models, proteomics, in vivo targeting, computational biology and clinical studies.

Qualifications/requirements
We are looking for highly motivated, dedicated and ambitious candidates with:
• A Master’s degree in Life Science, preferably Molecular Biology, Biomedicine, or Computational Systems Biology
• Documented experience with adipocyte biology, mouse models and/or NGS data analysis
• Certificate in Laboratory Animal Science (EU function ABD or similar) (preferably)
• Strong communication and collaborative skills and an interest in working in an interdisciplinary environment
• Proficiency in spoken and written English.

Deadline: 6 April 2020.

For details click here


Posted on January 22, 2020

Doctoral Researchers: 9 Fully Funded Positions in Data Science & Health

The German Cancer Research Center is the largest biomedical research institution in Germany. With more than 3,000 employees, we operate an extensive scientific program in the field of cancer research. The German Cancer Research Center, Karlsruhe Institute of Technology and Heidelberg University are seeking Doctoral Researchers: 9 Fully Funded Positions in Data Science & Health (Ref-No. 2020-0004)

Do you want to bring artificial intelligence (AI) and data science to the forefront of health research? The Karlsruhe Institute of Technology is a top-ranked computer science university and Helmholtz research center. The German Cancer Research Center is the largest biomedical research institution in Germany with leading research in health data sciences. The Heidelberg University is the oldest university in Germany with a leading university clinic and excellent track record in scientific computing. These three top institutions joined to tackle this thrilling area by providing a unique doctoral program.

Your profile: We are looking for excellent graduates holding master degrees, received by July 2020 at the latest, in computer science, mathematics, engineering, physics or related quantitative sciences (e.g. bioinformatics or medical informatics).

For details click here


Doctoral Candidate (Ph.D. student) in Computational Systems Biology

The Luxembourg Centre for Systems Biomedicine (LCSB) was created within the Health Technologies Initiative from the Government of Luxembourg as one of the research priorities of the University of Luxembourg. The LCSB is an Interdisciplinary Centre of the University, independent of the faculties and it combines experimental and computational approaches to analyze complex biological systems and disease processes from a systems biology perspective. The Computational Biology Group (CBG) provides the LCSB with a solid infrastructure in developing theoretical framework for computational modeling on biomedical problems, especially in the area of network biology. The CBG group includes researchers with theoretical, computational and wet lab backgrounds, thereby providing an unusual interdisciplinary environment.

The Computational Biology Group seeks a highly skilled and motivated Ph.D. student to work on an exciting project that aims at developing a computational framework to design cellular conversion strategies for regenerative medicine purposes. This framework will be applied to obtain in vitro limbal stem cells, which will be later used for clinical transplantation to treat patients who have lost their vision. The PhD student as part of his/her education will be involved in data pre-processing and modelling to generate hypotheses, which he/she will experimentally test. This is a collaborative project with the Centre for Regenerative Medicine “Stefano Ferrari”, University of Modena (Italy), where the experimental validation of the computational predictions will be conducted.

Requirements of the ideal candidate:

  • Master degree in biological sciences or a related discipline
  • Wet lab experience in cellular and molecular biology is required
  • Basic bioinformatics training strongly desired
  • Excellent working knowledge in English.

Ref: 50015370

All applications should be submitted online preferably in electronic version before January 31st , 2020.

For details click here


Posted on January 20, 2020

8 PhD positions in Biosciences

CENTURI brings together leading institutes in biology, physics, mathematics, computer science and engineering to decipher the complexity and dynamics of living systems. CENTURI offers an exceptional international environment for the development of interdisciplinary projects, in developmental biology, immunology and neurosciences. CENTURI is mainly located on the Luminy campus of Aix-Marseille University and is affiliated to Aix- Marseille University, CNRS, INSERM and École Centrale Marseille.

The Turing Centre for Living Systems (CENTURI) wishes to attract talented PhD students to the Luminy campus. To do so, CENTURI will fund up to 18 PhD positions to start in 2020. PhD students will work in an interdisciplinary life science environment, and have backgrounds in any of the following fields: cell or developmental biology, immunology, neurobiology, biophysics, theoretical physics, computer science, bioinformatics, applied mathematics, engineering.

Deadline for application: February 16, 2020

For details click here


PhD position in Functional Genomics

1 position as a University Assistant for 4 years, 40 hours per week, starting as soon as possible, at the Institute of Biomedical Informatics at Graz University of TechnologyA position for a doctoral candidate is available in Leila Taher’snewlab at the Institute for Biomedical Informatics at Graz University of Technology (Austria, https://www.bioinfo.tugraz.at). We develop and apply regulatory genomics and systems biologyapproaches to analyze large genomic datasets. Our long-term goal is to gain novel insights into the mechanisms and evolution of differential gene expression.

Required academic qualification:Master’s level degree in Bioinformatics, Informatics in the Natural Sciences, Applied Computer Sciences,Molecular Biology,Bioengineering or equivalent.

•good programming skills (e.g., Perl, Python, R; see "Beginning Perl for Bioinformatics" by James D. Tisdall and "Developing Bioinformatics Computer Skills" by Cynthia Gibas and Per Jambeck).

•a proven knowledge of Molecular Biology at thelevel of Benjamin Lewin’s "Genes XII".

•a solid understanding of statistics.

•familiarity with UNIX/Linux, including shell scripting.

•experience owith the analysis of NGS data, building NGS pipelines (e.g., Snakemake) and using bioinformatics tools; and/oroin the field of (human) genomics.

•a high level of organization and attention to detail.

•the willingness and ability to work individuallyand as part of a team.

For details click here


Posted on January 17, 2020

Doctoral Student in Biomedical Sciences

The project is funded by the Swedish Research Council (2020-2024) and involves researchers from Linnaeus University, Lund University and The McGill University, Montreal, Canada. The overall aim of the lab in Kalmar is to deepen our understanding of the evolutionary optimized contractile function of muscle and gain insight into how changes in muscle proteins cause deterioration in diseases and in ageing. On-going projects also aim to exploit muscle proteins in nanotechnological applications. The specific aim of the present PhD project will be to gain in depth insights into the molecular basis for high resistance to stretch of active muscle (skeletal muscle and heart) with low consumption of chemical energy (ATP).

Entry requirements
A candidate fulfils the general entry requirements (as laid out in the Swedish Higher Education Ordinance (Högskoleförordningen), Chapter 5 and 7) if he/she:

  • Has been awarded a degree on second-cycle level
  • Has completed courses totalling at least 240 higher education credits (ETCS), of which at least 60 must be at second-cycle level in a related field, or acquisition of essentially equivalent knowledge in Sweden or abroad.

Please submit your application no later than January 30th 2020.

For details click here


PhD student in Systematics and Evolutionary research

The Department of Zoology is one of the departments at the Faculty of Science with about 50 employees and 40 students. The main research areas are Ecology, Ethology, Functional Morphology, Population Genetics, and Systematics and Evolution. This PhD position will be located at the Department of Bioinformatic and Genetics at the Swedish Museum of Natural History.

The objective of this project is to study the evolutionary importance of interspecific gene flow and its role in promoting phenotypic change. In particular, the project focuses on ancient and more recent hybridization in Birds-of-Paradise as they are notorious hybridizers even across genera. Several species display plumage ornamentations that are surprisingly similar to those found in distant relatives and our previous research using genomic data has shown that hybridization between such lineages is not uncommon. This suggests that the genetic variants underlying, e.g., plumage ornamentation might have been transferred between distantly related linages through adaptive introgression.

Qualification requirements In order to meet the general entry requirements, the applicant must have completed a second-cycle degree, completed courses equivalent to at least 240 higher education credits, of which 60 credits must be in the second cycle, or have otherwise acquired equivalent knowledge in Sweden or elsewhere.

Closing date: 28 February 2020

For details click here


Posted on January 15, 2020

Doctoral fellow in Bioinformatics

The position:

The cancer research team at the Department of Biomolecular Medicine (supervised by prof. ir. Katleen De Preter) has a vacancy for a highly motivated researcher with expertise in bio-informatics and a keen interest in translational cancer research. www.crig.ugent.be/en/prof-katleen-de-preter-phd

The project:

A new era of clinical care, so-called precision oncology is opening unprecedented potential for developing novel therapeutic strategies for cancer patients. Amongst others, liquid biopsies are now offering a great potential for noninvasive exploration of circulating tumor nucleic acids and cells thus allowing improved diagnostics, tumor follow up, study of heterogeneity etc. The work of our team is supported by several research grants focused on integrative data-analysis of exome, genome and transcriptome sequencing generated on bulk as well as single cells obtained using invasive and non-invasive tumor sampling.

Your profile:

You will work in a multidisciplinary environment under the supervision of senior scientists in bioinformatics and molecular biology in the Department of Biomolecular Medicine and within the broader framework of the Cancer Research Institute Ghent (crig.ugent.be) where you will implement and develop (new) algorithms for genomics analysis of tumors aiming at a more precise care for the patient.

• MSc with a specialization track in bioinformatics or equivalent through experience

• Experience with the analysis of sequencing data, such as (human) whole exome/genome sequencing, (single cell) RNA-sequencing, including quality control, read mapping, variant detection, de novo assembly, SNP/indel calling, copy number and structural variation analysis, expression level analysis and further downstream data-mining (including network inference) is a plus.

• Solid expertise in bioinformatics programming, and scripting (e.g. R, Perl, Python) is strongly recommended.

• Basic insight of (cancer)biology and genomics

• Candidates should have good communication skills, are team players and have strong strategic analytical problem-solving skills (creative, critical, and open-minded).

• Excellent oral and written communication skills in English; English language proficiency

Last application date Feb 16, 2020 17:12

For details click here


PhD student - Epigenetic Programming of Lymphocytes

The Heinz Jacobs / Fred van Leeuwen groups are looking for a PhD student to join the research group of Heinz Jacobs. The Jacobs group is part of the division of Tumor Biology & Immunology at the Netherlands Cancer Institute. The main research focus of the group is DNA Damage Tolerance (DDT), Programmed Mutagenesis and Epigenetic Control of Lymphocyte Development. Fred van Leeuwen and Heinz Jacobs recently were awarded a prestigious NWO TOP Grant to unravel the role of DOT1L in programming lymphocyte development and maintaining their identity and function.

Using established genetically engineered mouse models (GEMMs) the PhD student will address in close collaboration with other team members of the Jacobs/van Leeuwen laboratories the role DOT1L dependent H3K79 methylation in coordinating the development, differentiation, and behavior of lymphocytes. The project covers a broad range of technologies. Excellent core facilities with experienced scientific staff members and lively scientific environment warrant strong support.

Your profile

To address the function of DOT1L at the molecular and cellular level, we seek an ambitious molecular/medical biologist with affinity for bioinformatics.

For details click here


Posted on January 13, 2020

Doctoral Students in Molecular Medicine, Bioinformatics and Artificial Intelligence

FIMM is an international research institute focusing on human genomics and personalized medicine at the Helsinki Institute of Life Science of the University of Helsinki. FIMM integrates molecular medicine research and technology centre and biobanking infrastructures under one roof promoting translational research in grand challenge projects, specifically, the impact of genome information from the Finnish population in personalized health and medicine, individualized cancer medicine, and digital molecular medicine. The areas of interest of the 22 research groups cover cancer, cardiovascular disease, immune disorders, and neurological and psychiatric diseases.
In the areas of bioinformatics and computational biomedicine, FIMM collaborates with Helsinki Institute for Information Technology HIIT, a multi-disciplinary research institute focused on basic and applied research on information technology. Modern molecular medicine requires state-of-the-art methodologies in machine learning and artificial intelligence, data analysis, visualization and modelling of large data sets; HIIT research groups and programmes provide world-class research excellence in these areas.
Qualifications and experience:
Candidates are expected to have a second cycle academic degree (MSc, MD or equivalent) in biology, biochemistry, bioinformatics, biotechnology, cell biology, computer science, genetics, mathematics, medicine, or other related fields, obtained before the start of the position (August 2020). The successful candidate will have good problem solving, troubleshooting, and analytical skills. In addition, the candidate should be fluent in English, have good interpersonal and written and oral communication skills, and be able to work independently as well as in an international team.

Candidates are invited to apply online at no later than February 2, 2020 at 23:59 Eastern European Time.

For details click here


Doctoral (PhD) student position in Mucosal immunology

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.

he Tjernlund research team is part of the Broliden research group which is based at BioClinicum at the Karolinska University Hospital site in Solna. We belong to the Division of Infectious Diseases at the Department of Medicine Solna where research and education is performed in close collaboration with the Karolinska University Hospital. The research teams address a wide range of infectious diseases using clinical, epidemiological and experimental approaches. We share laboratory and office space with Professor Färnert’s research group, which perform malaria research. The Tjernlund team focuses on mucosal immunology and tissue-based analyses is a central platform in our studies.

Skills and personal qualities
The candidate must hold a master of science (MSc) in a related field. Fluency in English is mandatory. It is highly meriting if the applicant has previous knowledge and practical experience in different immunological techniques, data visualization and multivariate analysis (with the use of R; for example). The candidate is moreover expected to be organized and able to work independently. The project includes studies abroad, and the project will be done in an interdisciplinary environment, with collaboration with several research groups. Good collaborative-, social- and analytical skills are required.

Reference number 2-95/2020

Last application date 31.Jan.2020

For details click here


Posted on January 10, 2020

PhD Positions to Study Adipocyte and Hepatic Cellular Plasticity Using Advanced Functional Genomics

The Center for Functional Genomics and Tissue Plasticity (ATLAS) at the Functional Genomics & Metabolism Research Unit, Department of Biochemistry and Molecular Biology, University of Southern Denmark, invites applications from outstanding candidates who are interested in joining our team as PhD students. One of the PhD students will be affiliated with the Mandrup Group, the other will be affiliated with the Grøntved Group.  Center for Functional Genomics and Tissue Plasticity (ATLAS) at University of Southern Denmark is supported by the Danish National Research Foundation. The aim of ATLAS is to obtain systems-level, mechanistic and cell type-resolved understanding of adipose and hepatic tissue plasticity in response to diet-induced obesity and regression in mouse models; and to translate this for in-depth understanding of the functional changes in human adipose and hepatic tissues in response to severe obesity and reversal. The centre applies a combination of functional genomics approaches including single cell sequencing, mouse models, proteomics, in vivo targeting, computational biology and clinical studies.

As a PhD student in ATLAS you will be engaged in a highly ambitious and interdisciplinary project covering gene regulatory mechanisms involved in liver and adipose tissue plasticity. You will interact and collaborate closely with other researchers in the Mandrup and Grøntved groups as well as with members of the other research groups within ATLAS and at the Department of Biochemistry and Molecular Biology.

Qualifications/requirements
We are looking for highly motivated, dedicated and ambitious candidates with:
• A Master’s degree in Life Science, preferably Molecular Biology, Biomedicine, or Computational Systems Biology
• Documented experience with adipocyte biology, mouse models and/or NGS data analysis
• Certificate in Laboratory Animal Science (EU function ABD or similar) (preferably)
• Strong communication and collaborative skills and an interest in working in an interdisciplinary environment
• Proficiency in spoken and written English.

Application deadline: 6 April 2020.

For details click here


PhD - Learning algorithms for drug target prediction

The Faculty of Electrical Engineering, Mathematics and Computer Science (EEMCS) is known worldwide for its high academic quality and the social relevance of its research programmes. The faculty’s excellent facilities accentuate its international position in teaching and research. Within this interdisciplinary and international setting the faculty employs more than 1100 employees, including about 400 graduate students and about 2100 students. Together they work on a broad range of technical innovations in the fields of sustainable energy, telecommunications, microelectronics, embedded systems, computer and software engineering, interactive multimedia and applied mathematics.

In silico selection of promising targets for therapy is crucial to agilize and bring down the costs of drug discovery, since screening compounds against every possible target in relevant biological samples requires an inordinate amount of resources. Nevertheless, available computational strategies for drug target prediction are not yet able to deliver robust therapy targets. In general, around 90% of clinical drug trials fail due to lack of efficacy. As an important first step within the drug discovery pipeline, improvements to the identification of promising therapeutic targets could lead to dramatic gains overall.

Requirements

The successful PhD candidate has a solid foundation in one or more of the following disciplines: algorithms and complexity, machine learning. Typically, this translates to a background in computer science or other exact sciences (physics, engineering). Extensive knowledge of biology is not required, but interest and willingness to learn will be essential to design meaningful methodology. We require fluently spoken and written English. In addition, we are looking for creativity, critical thinking, rigour, independence, and good communication skills.

To apply, please email your application documents by February 9th, 2020 to vacancies-eemcs@tudelft.nl: mentioning vacancy EWI2019-92:

For details click here


Posted on January 08, 2020

PhD fellowship in ancient dog genomics

The Racimo group invites applications for a PhD student position at the University of Copenhagen. Our group focuses on using ancient and present-day genomes to understand patterns of selection and admixture over time, and to develop methods to jointly analyze population and functional genomic data. This position would be particularly focused on analyzing a large panel of ancient dog genomes and to develop methods to infer patterns of natural selection in dogs in the last 15,000 years.

The candidate will be able to work with an unprecedentedly large ancient genomic dataset of canine samples, from a period spanning the last 15,000 years. The focus of the project will be on integrating ancient genomics with population genetic theory and quantitative genetic resources. The candidate will have freedom to design their project in consultation with the advisor. Research topics can include: 1) Utilizing canine trait-association data to learn about the evolution of complex traits in ancient dogs from the Paleolithic, Neolithic, Bronze Age and Iron Age; 2) Developing methods to detect genes under positive selection when working with multiple populations related to each other in complex ways; 3) Searching for functional variants that were positively selected in dogs over time during major human cultural transitions, like the advent of agriculture; 4) Testing among different models of co-evolution between humans and dogs.

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

The deadline for application is 1 March 2020 at 11:59 PM CET. The starting date will be 1 September 2020, but can be negotiated to be earlier or later.

For details click here


PhD position Life Cell STED Nanoscopy

Since its foundation in 1614, the University of Groningen has established an international reputation as a dynamic and innovative university offering high-quality teaching and research. With its 32,000 students and Nobel prize winning researchers, University of Groningen ranks among the top universities globally. It is situated in the vibrant capital of the northern Netherlands, Groningen.

We are looking for an enthusiastic PhD candidate for our research on life cell STED nanoscopy in the lab of Assistant professor Rifka Vlijm in the Molecular Biophysics group of the Zernike Institute for Advanced Materials. We offer this position in a stimulating, diverse, international research environment in a worldclass academic institute with a multi-disciplinary research programme that encourages close collaborations between theoretical and experimental groups with different expertise.

Qualifications

• a European master’s degree (or equivalent) in (bio)physics, nanoscience or (bio)informatics
• an excellent track record
• highly motivated and able to work in a multidisciplinary and international work environment
• excellent communication skills in both oral and written English
• experience in programming (e.g. Python, LabVIEW).

Experience in optics and (cell)biology is highly appreciated but not mandatory.

You can submit your application until 16 February 2020 23.59 pm Dutch local time (CET) by means of the application form (click on "Apply" below on the advertisement on the university website).

For details click here


Posted on January 06, 2020

PhD positions in bioinformatics and computational biology

We study the causes of disease progression, with a specific focus on cancer, in order to identify which extrinsic and intrinsic factors can contribute to disease mutation occurrence in DNA, as well as to discover molecular mechanisms of how these mutations can affect proteins, protein interactions, and dynamical behavior of chromatin. We apply and design computational methods that integrate hypothesis- and data- driven approaches, including machine learning, molecular modeling and molecular dynamics simulations. We work in close collaboration with many experimental groups and use experimental data ranging from hydroxyl radical footprinting, chemical crosslinking to cryo- electron microscopy to guide us in designing new hybrid approaches. From a practical point of view, this can provide predictive power for the behavior of the system in response to disease and offer experimental leads for identifying driver mutations and genes, and for designing drugs that affect protein interactions and pathways.

Master and PhD student positions are available in the laboratory of Computational Biology and Biophysics of Queen's University School of Medicine. Laboratory studies the epigenetics of cancer to identify factors contributing to disease mutation occurrence in DNA, and to discover molecular mechanisms of how these mutations can affect proteins, protein interactions, and dynamics of chromatin. The prospective master and graduate students will perform data analysis and design of computational methods that involve machine learning and/or molecular modeling. Laboratory works in close collaborations with several experimental groups in Canada and USA and candidates are expected to work in a collaborative environment.

Qualifications

- Proficiency in English;
- proficiency in using linux command line;
- familiarity with programming in R or python;
- solid knowledge of statistical methods, preferably experience with machine learning and large data analysis.

For details click here


25 PhD positions within the Doctoral Programme TALENT

Biodiversity; biological sciences and bioinformatics; chemical sciences; computer sciences; earth and planetary systems sciences; environment, 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.

In Horizon 2020, the EU Research and Innovation program (2014-2020), the University of Copenhagen is number two in Europe when it comes to attracting Marie-Sklodowska-Curie Actions. To exemplify this, SCIENCE has over 155 Marie-Sklodowska-Curie Actions. Moreover, SCIENCE researchers have received 38 grants from the European Research Council in Horizon 2020. SCIENCE is also host to six Centers of Excellence financed by the Danish National Research Foundation. These accomplishments show that SCIENCE’s research environments have the academic weight to attract researchers at a high international level. This again testifies to the fact that the TALENT program constitutes an extraordinary opportunity for doing a PhD.

The TALENT program offers 74 PhD fellowships (in total) of 36 months each, attractive employment conditions at one of the 12 departments at SCIENCE and enrolment as a PhD student at the PhD School at SCIENCE. TALENT is a unique program by requesting, as part of the application procedure, the applicants to devise their own interdisciplinary PhD project within one of the above-mentioned 16 program 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.

Application deadline: 13-02-2020

For details click here


Posted on January 03, 2020

PhD position in Bioinformatics/ Genomics

A position for a doctoral candidate is available in Leila Taher’s lab at the Institute for Biomedical Informatics at Graz University of Technology (Austria, https://www.bioinfo.tugraz.at). We develop and apply regulatory genomics and systems biology approaches to analyze large genomic datasets. Our long-term goal is to gain novel insights into the mechanisms and evolution of differential gene expression.

Required academic qualification:

Master’s level degree in Bioinformatics, Informatics in the Natural Sciences, Applied Computer Sciences, Bioengineering or equivalent. In addition, the successful candidate should have

  • good programming skills (e.g., Perl, Python, R; see "Beginning Perl for Bioinformatics" by James D. Tisdall and "Developing Bioinformatics Computer Skills" by Cynthia Gibas and Per Jambeck).
  • a proven knowledge of Molecular Biology at the level of Benjamin Lewin’s "Genes XII".
  • a solid understanding of statistics.
  • familiarity with UNIX/Linux, including shell scripting.
  • experience with the analysis of Illumina NGS data, building NGS pipelines (e.g., Snakemake) and using of bioinformatics tools.
  • a high level of organization and attention to detail.
  • the willingness and ability to work individually and as part of a team.

And be

  • proficient in both written and oral English.
  • creative.
  • self-motivated, with strong work ethics.
  • open-minded.

Command of the German language is not a requirement.

Tasks: Gene expression is primarily controlled at the level of transcription, which is mediated by transcription factor activity and changes in the chromatin structure. Chromatin structure is largely determined by histone modifications and DNA methylation, collectively known as epigenetic marks. Large international efforts such as the ENCODE (https://www.encodeproject.org/) and FANTOM (http://fantom.gsc.riken.jp/) projects are now generating a wealth of transcriptomic and epigenomic data that should enable us to elucidate the mechanisms underlying health and disease. However, the analysis of these data is not trivial. In particular, repetitive regions in the genome pose an enormous challenge to current bioinformatics tools. It has been estimated that approximately two-thirds of the human genome consists of repeats or repeat-derived sequences, and a predominant part of these sequences are transposons. The successful candidate will develop computational tools to aid the genome-wide characterization of sequences of transposon origin.

How to apply:

Please, send an e-mail to funcgenfau@gmail.com addressed to Leila Taher and with the subject "PhD BIOINFO NANTES". An application package must contain the following documents (in English, all in one PDF file):

  1. A cover letter with a short explanation for how this position fits into your interests and career aspirations.
  2. Your CV.
  3. Copies of your transcripts and certificates.
  4. Contact information for two references.

Only complete applications will be considered.

For details click here


PhD Student in Bioscience Engineering, Biochemistry or Biomedical Engineering

The BioPort group from Ghent University is currently looking for a talented PhD-student to be hired on a project running for about 1 year, and willing to apply for a personal FWO scholarship to extend his/her research. BioPort is a young and dynamic research group at the Faculty of Bioscience Engineering of Ghent University and recently started a new and emerging research line on extracellular transport over biological membranes related to Industrial Biotechnology. The goal is to both examine fundamental aspects of transporter enzymes like their specificities towards different substrates and catalytic properties, and at the same time develop platform systems for advanced export in synthetic biology systems. Suggestions by the candidate related to these topics are highly appreciated. We are looking for a motivated PhD-student willing to join our team for a period of one year and a few months. You will be employed on a running project aiming to develop innovative solutions for transport in synthetic biology.

Profile of the candidate

The scholarships are highly competitive and require strong input from the candidate. Hence, we are looking for a candidate eager to obtain a PhD and fascinated by research in an academic set-up.

Please see other requirements below:

• You have a master degree in Bioscience Engineering, Biochemistry or Biomedical Engineering from one of the countries of the EU, the EER or Switzerland

• You have obtained this degree with at least ‘distinction’ (cum laude), and no longer than 3 years ago calculating from 01/03/2020

• You have not previously received a FWO fellowship (not even in part)

• At deadline of submission (01/03/2020), you have no more than 18 months of scientific experience

• Experience with molecular biology and microbiology is essential

• Experience with industrial biotechnology or biochemistry is a plus

How to apply

If you are an eligible candidate, are enthusiastic about this subject and are interested in joining our BioPort team, please send your motivation letter and CV (including study results, thesis research topic, contact information of possible referee persons and a recent picture of yourself) to Prof. Dr. ir. Inge Van Bogaert (Inge.VanBogaert@ugent.be) by January 5th, 2020 the latest.

For details click here


Posted on January 01, 2020

PhD fellow in Crop genome engineering

Department of Plant & Environmental Sciences, Faculty of Science at University of Copenhagen is offering a PhD scholarship in crop genome engineering commencing 01.07.2020 or as soon as possible thereafter.

We are recruiting a PhD student to work on a three-year project aimed at manipulating flowering time in crop plants using microProtein engineering. The position is part of the newly funded NovoCrops center by the Novo Nordisk Foundation. We are looking for a highly motivated individual with an MSc in biology or related disciplines. The ideal applicant has experience in working with plants. Knowledge in genome-engineering and/or protein biochemistry is a plus.

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

  • To manage and carry through your research project
  • Attend PhD courses
  • Write scientific articles and your PhD thesis
  • Teach and disseminate your research
  • To stay at an external research institution for a few months, preferably abroad
  • Work for the department

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

The deadline for applications is 15 January 2020, 23:59 GMT +1.

For details click here


PhD position in Structural Biology

A PhD position in structural biology at the Structural Biology and NMR Laboratory, Department of Biology, Faculty of Science, University of Copenhagen, Denmark, is available from March 15th, 2020, or soon thereafter. The position is part of the newly funded consortium- TAMiR – that connects research groups in Copenhagen, Oslo and Trondheim in the aim of targeting antimicrobial resistance by inhibition of the bacterial stress responses. TAMiR is funded by the TROND MOHN foundation in Norway.

A 3-year PhD position will be available for the studies of disordered proteins interacting with large DNA clamps, such as proliferating cell nuclear antigens and the beta-clamp. The PhD student will apply a suite of biophysical techniques, with special focus on multidimensional, heteronuclear biomolecular NMR spectroscopy. Other techniques include ITC, MST, CD, stopped-flow kinetics as well as biochemical assays. The project will seek to promote the understanding of the role of flanking regions for discriminative binding, mapping mechanisms and specificity via kinetics and thermodynamics, as well as determining structures and ensembles.

Qualifications:
We are seeking a highly motivated applicant with an MSc degree in chemistry, biophysics, biochemistry or related fields with the following competences:

•    Protein expression and purification, including optimization of protocols
•    Structural biology
•    Good oral and written English competences

It will be highly advantageous to have one or more of the following qualifications:

•    Protein NMR spectroscopy, including set-up and spectral analyses (hands-on experience beyond course level)
•    Experience with biophysical techniques such as ITC, stopped-flow, CD or fluorescence spectroscopy or small angle X-ray scattering (hands-on experience beyond course level)
•    Publications in peer-reviewed scientific journals

Application deadline: 05-01-2020

For details click here


Posted on December 30, 2019

PhD student in Clinical Metabolomics and Bioinformatics

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 PhD student position is available for highly motivated individuals with an interest in bioinformatics to join the laboratory of Assoc. Professor Kim Kultima at Uppsala University, Dept. of Medical Sciences, Clinical Chemistry. Dr. Kultimas research group has a focus on mass spectrometry-based methods in clinical metabolomics.

Requirements:

  • MSc degree in a relevant area (e.g. Bioinformatics, Biotechnology, Computer science, Computational biology, Biostatistics).
  • Documented practical experience of scripting using R, and statistical and bioinformatics analyses of -omics data.
  • Documented oral and written proficiency in English.
  • Good recommendations from previous supervisors/teachers.
  • Emphasis will also be given on personal qualities. The project requires that you can work independently and that you have good collaborative ability as the work will be run in close collaboration with other researchers.

Please submit your application by 13 January 2020, UFV-PA 2019/4276

For details click here


PhD positions in Bioscience/ animal science/ Bioinformatics

The Graduate School of Science and Technology at Aarhus University is looking for a number of bright, enthusiastic and ambitious candidates who are interested in pursuing a PhD education. The University is located in Aarhus, Denmark, which provides international students with a safe and stable environment, a high standard of living and a wealth of social opportunities. Besides having an excellent reputation that enables our PhD graduates to find outstanding employment prospects, Aarhus University offers attractive working conditions, research support and campus resources.

We offer a number of PhD positions in the following programmes:

Agroecology (incl. Plant Science and Soil Science)

Animal Science

Bioscience

Chemistry

Computer Science (incl. Bioinformatics)

Engineering

Environmental Science

Food Science (incl. Horticulture)

Geoscience

Mathematics

Molecular Biology and Genetics (incl. Molecular Medicine)

Nanoscience

Physics and Astronomy

Applications are accepted from college students and graduates with an academic record corresponding to a bachelor’s or master’s degree.

Application deadline is 1 February 2020 at noon, 11:59 AM CET, with a starting date of 1 May 2020 or later.

For details click here


Posted on December 27, 2019

15 PhD positions in European Network “Cell-to-cell heterogeneity” (Cell2Cell)

Cell2Cell is an international network of leading academic and industry groups, which provides multidisciplinary and intersectoral training for 15 early stage researchers (ESRs) in the fields of pathogen biology, chromatin biology, bioinformatics and single-cell methods. Cell2Cell investigates how cell-to-cell heterogeneity in chromatin enables pathogens to overcome challenges critical to establish persistent infections. To address this question, the research program aim to link changes in chromatin structures and genome organization to the adaptation of pathogens to the host environment and evasion from the host immune response. A strong focus is placed on the development of novel single-cell technologies to better study cell-to-cell heterogeneity.

15 positions are available for a 3-year PhD programme at institutions across Europe. The positions are funded by the new Marie Skłodowska-Curie Innovative Training Network (ITN) "Cell2Cell”.

General information:
1. You will be employed by the host organization for the duration of the PhD.
2. You will receive a competitive salary, a mobility allowance and a family allowance (where applicable).
3. You will benefit from a comprehensive training program in the areas of infection biology, yeast chromatin biology, single-cell biology and bioinformatics.
4. You will participate in international visits (secondments) to other organizations within the Cell2Cell network.
5. You will be part of an international network and benefit from joint activities (training events, summer school) within the program.

Eligibility criteria:
1. Applicants can be of any nationality.
2. Applicants must fulfill the mobility rule, i.e. have not resided or carried out their main activity (work, studies, etc.) in the country of the host organization for more than 12 months in the 3 years immediately before the recruitment date.
3. Applicants must fulfill the Early Stage Researchers (ESRs) rule, i.e. be in the first four years (full-time equivalent research experience) of their research careers at the date of recruitment by the host organization and have not been awarded a doctoral degree.

Deadline: February 15, 2020

For details click here


PhD Fellowship in computational stem cell biology

We wish to understand how the intestinal epithelium forms and how the tissue is maintained during steady state homeostasis and during regeneration. Here we use a number of different techniques including in vivo fate mapping to define cellular heritage, state of the art cell culture systems to identify signalling pathways that controls directed differentiation during embryonic, transplantation techniques and single cell RNA sequencing (Wong et al., 2012, Nature Cell Biology; Page et al., 2013, Cell Stem Cell; Fordham et al., 2013, Cell Stem Cell; Yui et al., 2018, Cell Stem Cell; Guiu et al., 2019, Nature; Andersen et al., 2019, Nature Cell Biology).

We are looking for a PhD student, who is interested in establishing a quantitative framework for how cell fate is regulated during tissue regeneration in the intestinal epithelium. In the Jensen lab you will be an integral part of a small sub-team with clearly defined individual objectives and research goals. Using state-of-the-art cell biology tools, genetic mouse models and genome engineering, you will help us develop a framework based on computational analysis of single cell RNA sequencing data and quantitative fate mapping data. The work will bridge human and mouse regeneration, and help determine which key regulatory mechanisms control changes in cell fate decisions. The successful candidate has to be highly motivated and capable of working both alone as well as in a team, and previous experience from advanced cell culture systems and genome engineering is an advantage.

Qualifications
We are looking for a highly motivated and enthusiastic candidate with the following qualifications:

  • A Master of Science in bioinformatics
  • Experience in stem cell biology and advanced cell culture techniques
  • A strong background in molecular and cellular biology
  • Knowledge about the intestinal epithelium is a significant advantage
  • Interest in how gene regulation can affect cell fate
  • Excellent English skills written and spoken

Application deadline: January 1th 2020, 23.59pm CET.

For details click here


Posted on December 23, 2019

Copenhagen Bioscience PhD Programme

The Copenhagen Bioscience PhD programme recruits up to 16 motivated international students annually to launch their careers in the vibrant scientific environment of the Novo Nordisk Foundation Research Centers in Copenhagen. For enrolment in September 2020, applications will be open from November 12 2019.

Selection is based on academic achievements, research experience, academic references and interviews. A mandatory interview visit for up to 40 shortlisted applicants comprises panel interviews, one-on-one meetings with potential supervisors, and tours of the four Novo Nordisk Foundation Research Centers, and will take place in Copenhagen in March 2020. The Novo Nordisk Foundation will pay for travel and accommodation for selected applicants in association with the interview visit.

Programme outline

The four-year programme is divided into a pre-doctoral year followed by three years of PhD training at one of the four Novo Nordisk Foundation Research Centers embedded at the University of Copenhagen or the Technical University of Denmark:

Center for Stem Cell Biology

Center for Protein Research

Center for Biosustainability

Center for Basic Metabolic Research

Eligibilty

The CPH Bioscience PhD programme is designed for international talents to come to Denmark and start their research careers at one of the NNF Research Centers.

Applicants must fulfill the following:

  • Submit a fully completed application form before the deadline via the Novo Nordisk Foundation web-based application system.
  • Provide a minimum of two academic references.
  • Hold, or anticipate receiving before enrolment, a university degree that formally qualifies the applicant to enter a PhD or equivalent programme in the country where the degree was obtained.
  • Hold, or anticipate receiving before enrolment, a university degree from outside of Denmark.
  • The programme is also open for applicants with a Danish degree who can document at least 12 months of full-time research experience from outside Denmark, confirmed by at least one of the academic references.
  • Provide proof of English language skills (e.g. TOEFL, IELTS, GRE scores).

The application deadline is January 9 2020.

For details click here


PhD studentship - Identifying biomarkers that may affect diabetes comorbidity

It is estimated that 415 million people worldwide suffer from diabetes which will rise to 642 million by 2040 . Ninety percent of cases are type 2 diabetes (T2D). Treatment of secondary complications/comorbidities accounts for ~75% of the costs associated with T2D in the NHS . T2D is associated with hypertension (76%), arthritis (55%), coronary disease (28%), neuropathy (21%) and renal disease (18%) ; 47% of patients suffer  or more comorbidities. Comorbid patients are routinely excluded from clinical trials, limiting our understanding of how treatments affect comorbidities . Comorbid patients commonly receive separate, fragmented treatment for each morbidity, with implications for cost and quality of care. It is not well understood (i) whether the association between comorbidities is driven by pathophysiological or lifestyle factors and (ii) whether one morbidity is causative of another or whether they share common causes.

Aim 1: Profile comorbidity in populations representative of the UK.

Aim 2: Model the pathway biology of the key comorbidities.

Aim 3: Identify genes/proteins/pathways associated with comorbidity development and targets contained therein.

Desirable Criteria

If the University receives a large number of applicants for the project, the following desirable criteria may be applied to shortlist applicants for interview.

  • Demonstrable programming skills and mathematical ability.
  • Familiarity with biomedical science is desirable, but not essential.
  • Completion of Masters at a level equivalent to commendation or distinction at Ulster is desirable, but not essential.
  • A background in biomedical science, stratified/personalised medicine, bioinformatics, biomedical engineering, computer science, mathematics, physics or another quantitative science.

Essential criteria

  • To hold, or expect to achieve by 15 August, an Upper Second Class Honours (2:1) Degree or equivalent from a UK institution (or overseas award deemed to be equivalent via UK NARIC) in a related or cognate field.
  • Sound understanding of subject area as evidenced by a comprehensive research proposal

Submission deadline Friday 7 February 2020

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

For detail click here


20 ICFO International PhD Fellowship positions

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

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

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

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

application deadline: 26th of March, 2017

For detail click here