Jobs

Jobs in Bioinformatics, Genomics and Life Science

Job Alerts in this week (December , 2019)


Update on December 11, 2019


Postdoc in Computational Biology/Bioinformatics

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 architecture, industrial management, urban planning, history and philosophy.

These projects are concerned with applications of computational methods to cancer omics data. Some of the cancer data has a single-cell resolution and some carries spatial information. The bacterial data consist of an extensive collection of NGS genomes. We are collaborating with groups developing new experimental methods as well as generating biomedical data.

Qualifications

Requirements

A doctoral degree or an equivalent foreign degree, obtained within the last three years prior to the application deadline.

You need a very strong background in bioinformatics analysis of biological data. Excellent programming skills are a requirement. A good understanding of Biology is clear merit, but a basic knowledge and a desire to contribute to biology is a prerequisite

Great emphasis will be placed on personal competence and suitability.

Reference number J-2019-3134

Last application date 31.Jan.2020

For details click here


Postdoctoral Research Fellow and Bioinformatics Analyst

Dr. Hee Woong Lim’s laboratory in the Division of Biomedical Informatics has multiple positions available to work at the cutting edge of bioinformatics & computational biology research in the Division of Biomedical Informatics (BMI), Cincinnati Children’s Hospital Medical Center (CCHMC). The lab is interested in regulatory genomics to understand the fundamental mechanisms of gene expression regulation. We primarily focus on enhancer regulation and aiming at systems level understanding of enhancer architectures and functions in various contexts. To this end, we develop computational methods integrating various types of high-throughput multi-omics data such as ChIP-seq, ChIP-exo, CUT&RUN, GRO-seq, RNA-seq, ATAC-seq, and Hi-C as well as single-cell data.

Qualification

Postdoctoral Research Fellow: The ideal candidate will have a Ph.D. in a quantitative science such as computer science, bioinformatics, physics, or a related interdisciplinary field, be a highly motivated problem solver, and have strong communication skills. Experience with next-generation sequencing data and bioinformatics tool development is preferred. Candidates with a biology background with quantitative training are also encouraged to apply.

Bioinformatics Analyst: The ideal candidate will have MS or BS degree in a related quantitative science field. Must have strong programming skills and be familiar with the Linux environment enough to setup, execute, and develop bioinformatics pipelines. Previous experience of bioinformatics software development and analysis is preferred; decent background knowledge of genomics/molecular biology is plus.

Interested applicants should send an email to Dr. Hee Woong Lim (HeeWoong.Lim@cchmc.org) including CV and cover letter.

For details click here


Posted on December 09, 2019

Ad Astra Fellows, UCD School of Biomolecular and Biomedical Science

In support of the 2024 University College Dublin Strategic Plan ‘Rising to the Future’, UCD has begun an ambitious plan to increase our faculty numbers by 500 over five years. With an initial 5-year contract, research support for these 5 years and the opportunity for an on-going contract subject to performance, there has never been a better time to join the faculty at Ireland’s Global University and to live in one of Europe’s most vibrant, friendly and connected capital cities.

The School of Biomolecular and Biomedical Science is a vibrant teaching- and research-intensive School. The School has strength, critical mass and competes at an international level in the following areas of research excellence: Infection Biology, Genomic Analysis & Bioinformatics, Drug Discovery & Development, Diagnostics & Personalised Medicine, Mechanisms of Disease, Model Organisms for Biomedical Research and Biotechnology & Synthetic Biology. These research areas are underpinned by our fundamental disciplines of Biochemistry & Molecular Biology, Genetics, Microbiology, Neuroscience and Pharmacology.

Closing date: 17.00hrs (Local Irish Time) on 24th January 2020

For details click here


Project Scientist in Proteomics/Metabolomics to join the Superti-Furga Lab at CeMM

With the RESOLUTE consortium (www.re-solute.eu), we are trying to de-orphanize human transporters at a large scale and “unlock” them as potential pharmacological targets. We are currently pushing towards a paradigm-shift in the science of human cellular transporters by creating a massive, historical advance in knowledge on hundreds of individual transporters and the way they act together. These are very exciting times and research and the consortium is reaching full speed and thriving on synergies to turn this large effort into exploitable and practical knowledge.

We are searching for a highly motivated Project Scientist who wants to seize this opportunity and contribute to cutting-edge biomedical research in a highly dynamic public-private partnership. The RESOLUTE consortium is supported by the Innovative Medicines Initiative (IMI, www.imi.europa.eu) with 13 partners from academia and the pharmaceutical industry and is coordinated by the Superti-Furga laboratory at CeMM.

Your main mission is to plan, conduct and supervise de-orphanization studies -mainly proteomics and metabolomics - as part of the RESOLUTE team at CeMM in the Superti-Furga laboratory and in collaboration with the Proteomics/Metabolomics Facility at CeMM and RESOLUTE consortium partners. You are a creative scientist able to seize the opportunity to create, navigate, integrate, visualize and interpret original data in innovative ways.

Requirements and desired qualifications

  • PhD in cell biology, biochemistry, biotechnology or similar
  • Experience in mammalian cell culture (immortalized cell line models)
  • Excellent background in MS-based analytical techniques (LC-MS/MS) and corresponding data analysis methods
  • Experience with interaction (AP-MS) and proximity (BioID/APEX) proteomics is a plus
  • Need to be meticulous, highly-organized and must have the ability to work on a team towards well-defined goals and deliverables
  • Very good written and oral communication skills in English and excellent social skills are absolutely required

Closing date for applications: 06 January 2020

For details click here


Posted on December 06, 2019

5 Postdoctoral Research Associates in Bioinformatics and Data Science

The Cluster of Excellence on Plant Sciences is a joint unit of Heinrich Heine University Düsseldorf, University of Cologne, Max Planck Institute for Plant Breeding Research Cologne and Forschungszentrum Jülich. CEPLAS is developing innovative science-based strategies for sustainable plant production. Our aim is to mechanistically understand complex plant traits of agronomic relevance that impact on yield and adaptation to limited resources.

CEPLAS creates an international, interdisciplinary research environment. We offer a comprehensive training program for early career researchers tailored to your respective career level. Program components are (scientific) training, mentoring, coaching and networking with industry.

Within the field Bioinformatics and Data Science

Project 1: Comprehensive and efficient identification of genomic differences from whole-genome alignments
Qualifications needed: good algorithmic background, programming skills, basic knowledge in bioinformatics, Plus: experience with genomic data and/or plant genomics
Project leaders: Gunnar Klau, Korbinian Schneeberger

Project 2: GeneCOMPLETE
Qualifications needed: programming skills. Understanding of plants and background in machine learning are a plus.
Project leader: Björn Usadel

Within the field Plant Development and Metabolism

Project 3: Meristematic regulatory networks controlling floral transition
Qualifications needed: Molecular biology, confocal imaging, computational capability

Project leader: George Coupland

Project 4: Control of shoot meristem development in barley
Qualifications needed: molecular plant biology, grass genetics, plant development, imaging
Project leaders: Maria von Korff-Schmising, Rüdiger Simon

Project 5: Physiological and metabolic consequences of diversification of leaf margin complexity
Qualifications needed: Plant Physiology skills particularly on gas exchange or hydraulics, Plant Molecular/Developmental Genetics (especially in Arabidopsis), NGS data analysis Project leader: Miltos Tsiantis.

For details click here


Associate Research Scientist - Computational Biology

Associate Research Scientist – Computational Biology available in Sidi Chen Laboratory at Yale University (https://sidichenlab.org). This individual carries out computational research and development activities as directed by the PI.

#Minimal Required Education and Experience: 

PhD Degree in the area of computer science, computational biology, bioinformatics, data science, biostatistics, physics, or relevant scientific disciplines and strong skill sets of computing.

Preferred specific skills or experience:

1.     Linux / Unix operating systems, server operation, Awk or similar languages

2.     Custom scripting with Perl, Python, and/or C++

3.     Data analysis and graphics using R or similar

4.     Analysis of large datasets such as genomics, transcriptomics/RNA-seq, ATAC-seq, single cell sequencing, Mass-spec/proteomics/metabolomics, genetic screening

5.     Processing of large complex datasets such as high-content imaging, clinical data

6.     Machine learning, artificial intelligence

7.     Software development, API

8.     Fluent English communications

For details click here


Posted on December 04, 2019

Post-doctoral Fellow in Statistical Genetics

The University of Hong Kong Post-doctoral Fellow in Statistical Genetics in the Department of Statistics and Actuarial Science (Ref.: 499157) Applications are invited for appointment as Post-doctoral Fellow in Statistical Genetics in the Department of Statistics and Actuarial Science (Ref.: 499157), to commence as soon as possible for one year, with the possibility of renewal.

Applicants should possess a Ph.D. degree in a quantitative field including, but not limited to, statistics, biostatistics, computer science, bioinformatics, and computational biology. They should have experience and interest in human genetics. The appointee will conduct research in the group of Dr. Yan (Dora) Zhang. Current topics of the group include statistical genetics, bioinformatics, risk prediction, and large-scale biomedical data analysis.

Review of applications will commence as soon as possible and continue until May 31, 2020, or until the post is filled, whichever is earlier.

For details click here


Bioinformatician

Ranked among the "50 Smartest Companies" in the world according to the MIT Technology Review, SOPHiA GENETICS is a fast-paced growing health-tech company. Combining deep expertise in life sciences, medical disciplines and mathematical modeling, we bring to market data analytics solutions to support healthcare professionals in better diagnosing and treating patients. Today SOPHiA’s technologies are being adopted and trusted by over 980 leading hospitals worldwide, all connected to each other and motivated to provide equal benefits to all patients.

We are primarily looking for passionate people. Seize the opportunity to contribute to a great cause, improving the diagnosis and treatment of serious illnesses, from Cancer to Genetic Diseases, within an outstanding company! In our journey to impact patients' lives, we currently have two open positions in the Tertiary Analysis Operations team, based at our headquarters in Bidart, France. The team is transversal working across the two business lines of : Genomics and Clinical Trials. On numerous projects central to the company such as: Alamut, SOPHiA DDM™ and SOPHiA Trial Match™.

Requirements:

·      PhD in a scientific field would be advantageous or a Masters with several years of experience

·      Competence in a widely used bioinformatics programming language, Python, R and Snakemake workflows would be an advantage

·      Database experience in mysql and or postgres

·      Linux bash scripting experience

·      Knowledge of Genetics and Molecular Biology. Experience in a clinical setting would be an advantage

·      Knowledge of variant annotation software and or concepts would be advantageous

·      Excellent communication skills, including experience in communicating complex scientific principles in simple terms

·      English (the business language) is mandatory, French is a plus

For details click here


Posted on December 02, 2019

Postdoctoral Scientist Bioinformatics in Multiple Sclerosis

The Laboratory for Neuroimmunology focusses on translational research on multiple sclerosis (MS). This means that we start from important clinical questions, and investigate these in the laboratory. The aim is to translate the results back to improved health care for MS patients. To reach this goal, the Laboratory for Neuroimmunology has a translational structure with a clear research and clinical pillar. These two pillars build on the complementary expertise of Prof. An Goris and Prof. Bénédicte Dubois. Our research lines include identification of genetic risk factors for susceptibility of MS, genetic risk factors for heterogeneity in MS and functional follow-up of genetic risk factors. More information and examples of recent work can be found on our website (http://gbiomed.kuleuven.be/lni). Our research group also contributes to leading large-scale international communities, such as the International Multiple Sclerosis Genetic Consortium and the MultipleMS project.

Responsibilities

You will play a key role in local projects as well as in international collaborative projects, such as the EU Horizon2020 research program “MultipleMS” (www.multiplems.eu). In particular, for the “MultipleMS” project you will analyze large datasets integrating biological (genetic, immune phenotype, biomarker, …) and clinical (disease course, imaging, …) data of a unique prospective cohort of newly diagnosed patients with multiple sclerosis. You will manage these projects, and report and communicate on progress in meetings and telephone conferences.

Essential knowledge, skills, and experience required:

  • MSc in a relevant field such as Biomedical Sciences, Bio-engineering, Bioinformatics or Life Sciences with a PhD in a relevant topic
  • A computational mindset and a strong interest in computational biology
  • Expertise and proven track record in biological data analysis in health sciences such as analysis of genomics, transcriptomics, immunological or clinical data
  • Proficiency in UNIX/Linux and in R programming language
  • High sense of accuracy

You can apply for this job no later than January 03, 2020.

For details click here


Computational Biologists

The University of Cologne offers a wide range of scientific disciplines and internationally leading profile areas organized in six faculties. 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.

Your responsibilities will include:
•Development, implementation and application of workflows for data processing and statistical analysis of large scale ‘omics’ datasets
•Development and application of bioinformatics tools for data visualization, biological network modeling and pathway mapping
•Development and maintenance of a web-based portal for sample submission, project and data management
•Collaboration with users of the facilities and support in the interpretation of analysis results
•Maintenance of the facilities’ computer equipment

Qualifications:
•Diploma, master or doctorate degree (PhD) in Bioinformatics, Biostatistics, or closely related area
•1-3 years of working experience with analytics of RNA-seq, ChIP-seq and/or mass spectrometry-based data
•Strong experience with various statistical methods
•Solid knowledge in programming languages (e.g. R, Python, C++, Perl)
•Proactive and service-oriented team player with excellent communication and writing skills

We prefer online applications, but you also have the opportunity to apply via regular mail by 31. December 2019.

For details click here


Posted on November 29, 2019

Postdoctoral researcher/Researcher in machine learning/ Bioinformatics

Örebro University seeks to appoint a researcher with established expertise in Machine Learning. This position is jointly offered by three research groups at Örebro University: AASS, MTM/EnForce, and Functional Bioinformatics. AASS is one of the nationally leading research groups in robotics, AI and applied Machine Learning. The MTM/EnForce Centre at Örebro University focuses on environmental toxicant discovery and hazard assessment using advanced analytical methods, bioassay technologies and effect-directed analysis. The Functional Bioinformatics group conducts research in applying and further developing machine learning approaches for pattern discovery in biomedicine (biosignatures for diagnosis, prediction, and prognosis) as well as for systems for biological applications (network biology and network medicine).

Duties and responsibilities

The candidate will work closely together with AASS, MTM/EnForce and Functional Bioinformatics and bring in their Machine Learning (ML) expertise in the respective projects. The selected candidate will represent and apply this expertise and take responsibility for the technical infrastructure. It is possible but *not* required to acquire external funding or to teach. The position thus leaves room to keep in touch with current ML developments and admits further development of specialist skills. While the selected candidate will be included in all publications that result from the collaboration with other researchers at Örebro University, it is optional to pro-actively drive research or to develop a research portfolio at once own beyond their core expertise.

Eligibility

Eligible for the appointment as postdoctoral researcher are applicants holding a doctoral degree. A PostDoc position is offered if the successful applicant’s doctoral degree has been awarded no more than three years prior to the application deadline. Candidates who have obtained their doctoral degree prior to that are also invited to apply, the successful applicant will in that case be offered a researcher position.

The application deadline is 11 December 2019. We look forward to receiving your application.

For details click here


Postdoctoral fellow in Bioinformatics

The Bioinformatics Team within the Center for Data-Driven Discovery in Biomedicine (D3b - d3b.center) at the Children’s Hospital of Philadelphia (CHOP) is seeking a talented postdoctoral fellow to carry out a mentored, bioinformatics (computational) research project within the field of oncology, focused on discovery of novel oncogenic mechanisms of pediatric brain tumors. The postdoc experience will serve to extend, refine, and enhance skills necessary for professional and career development, and will enable the individual to broaden his/her scientific background by acquiring new research capabilities.

Responsibilities:

It is expected that this individual will conduct independent scholarly research, and will contribute directly to the overall research goals of the project and the research group. Postdocs will be expected to participate in project planning, recording, and interpretation/evaluation of data, and communication of results. Postdocs will also be expected to acquire technical, lab management, and manuscript/grant writing skills; and participate in seminars, lectures, poster sessions and presentations at national meetings. Postdoctoral fellows also may be required to supervise junior team members, develop new bioinformatics methods for research, and assist with the development of other research projects in the center.

Qualifications:

  • Ph.D., M.D., or D.V.M. in biological or computational discipline;
  • Experience in applied bioinformatics, genomics, and computational work;
  • Experience with management and analysis of complex data types;
  • Experience with genomic and/or proteomic data analysis methods;
  • Doctorate Degree in biological or computational discipline (preferred);
  • Four (4) years of research experience in applied bioinformatics, genomics, and computational work. This experience can be inclusive of a relevant PhD dissertation (preferred);
  • Fluency in two or more of: R, Python, Perl, bash, high-performance cluster computing, and/or cloud computing (preferred);
  • Experience with pipeline or workflow development frameworks (preferred);
  • Experience or knowledge of array/sequencing technologies commonly used in biological labs, such as RNA-Seq, WGS, WES, miRNA-Seq, SNP arrays, single cell sequencing, proteomics (preferred).

For details click here


Posted on November 27, 2019

Research Associate - Computational Biology, Bioinformatics

A research associate position in Computational Biology, Bioinformatics is currently available. The qualified candidate will be working on projects related to viral/cancer immunity and evolution. The overall aims of the projects are to develop and apply multi-omic approaches to mine and deconvolute complex datasets including genomic, transcriptomic, and proteomic data from viruses, hosts, and tumors to: a) discover population-specific virus-host interaction mechanisms and identify underlying genetic and evolutionary sources; b) delineate gene expression profiles in cancer and investigate their association with germline/somatic mutations, viral status, and other clinical data. Texas Biomed provides unique research and training opportunities including access to exceptional resources such as BSL4, SNPRC (Southwest National Primate Research Center), a vigorous infectious disease program on HIV, malaria, schistosomiasis, Ebola, Zika, hepatitis C and TB, career development workshops on grant writing, starting a new lab, and skill management, and outstanding imaging, computational, and sequencing facilities. Texas Biomed faculty have adjunct appointments at two universities in San Antonio (UTSA and UTHSCSA), which provide a wide range of additional training and career development opportunities for Texas Biomed employees.

EDUCATION/EXPERIENCE/SKILLS:

Required
A minimum Master degree or equivalent in bioinformatics, computer science, mathematics, statistics, physics, or engineering.
Skills in working with large datasets and developing tools and algorithms for parallel data analysis.
Coding in one or more platforms, e.g. Python, R, Matlab.

Desired
Official training in computational biology, bioinformatics
Experience in analyzing RNAseq, GWAS, Hi-C and other large biological datasets
Familiarity with databases such as UCSC Genome Browser, 1000Genomes, TCGA, and ICGC.
Experience in using standard bioinformatics packages such as Samtools, Cufflinks, Tophat, …
Knowledge of statistics
Knowledge of evolutionary biology, and viral/cancer immunity

For details click here


Bioinformatician

The Oklahoma Medical Research Foundation (OMRF) is an independent, not-for-profit, biomedical research institute adjacent to the campus of the University of Oklahoma Health Sciences Center (OUHSC) located in Oklahoma City. OMRF investigators have internationally recognized expertise in Autoimmunity, Immunology, Genetics, Aging, Cardiovascular Disease, and Cancer. Our Autoimmune Disease Institute (ADI) houses Centers of Excellence and specialty research clinics for Rheumatic Diseases (focusing on Lupus, Rheumatoid Arthritis, UCTD, and Sjogren’s) and for Multiple Sclerosis and related diseases. In addition to following over 4,000 patients with these conditions, teams of basic and clinical investigators conduct extensive clinical, translational and mechanistic research using samples obtained from these large clinical programs. Investigators at OMRF enjoy close scientific interactions with OUHSC faculty and participate in OUHSC graduate programs.

Our Translational Informatics group is seeking a bioinformatician to support both our clinical and basic research programs in autoimmune disease. Projects will include quality control, basic and Machine Learning analytic approaches to interpret single cell technology data from a wide range of technologies in the ADI. Technologies include but are not limited to single cell transcriptomics, single cell proteomics, spatial transcriptomics, inclusion of genetic variant information in eQTL analyses and highly multiplexed imaging technologies data including cell-distance and cell-pairing interation analyses. Systems in the division include 10X Genomics (scRNA-Seq, T-B repertoire, snATAC-Seq, Total-Seq, spatial transcriptomics), Fluidigm Helios and Hyperion mass cytometry/mass imaging, Zellkraftwerks ChipCytometry systems. Rich datasets already exist for immediate application of precision medicine and molecular phenotype classification of subjects using machine learning approaches, systems biology approaches, high content data analysis, data visualization and reporting for publications and grants, bioinformatics analyses of results from various transcriptomic/genomic assays. This position involves working both independently and as part of the translational informatics team.

Master’s degree or Ph.D. in Bioinformatics, Math, Statistics, Biostatistics, Computer Science, MIS, or relevant field and 2 years relevant experience or a combination of relevant experience and education. Strong project management, organizational, attention to detail, analytical, customer service, and verbal and written communication skills required.

For details click here


Posted on November 25, 2019

Two Postdoctoral Positions in Machine Learning for Alzheimer's Disease

The Machine Learning and Computational Biology Laboratory at the Department of Biosystems Science and Engineering (D-BSSE) is seeking two postdoctoral researchers to work on Machine Learning for Alzheimer's Disease. The postdocs will be joining a highly interdisciplinary research team and will be supervised by Dr. Catherine Jutzeler/Dr. Bastian Rieck and Prof. Karsten Borgwardt. The positions should start no later than February 15, 2020.

The positions are funded by Dr. Catherine Jutzeler's and Dr. Bastian Rieck's recently awarded SNSF Spark Grants on Machine Learning for Alzheimer's Disease. Alzheimer’s Disease (AD) is the sixth-leading cause of death for Americans ages 65 years and older. It is an irreversible, progressive brain disorder that slowly destroys memory and, eventually, an individual’s ability to perform even the simplest tasks, such as bathing, feeding, and dressing. Beyond the immediate health consequences, the societal costs are of epidemic proportion, thus making AD a pressing public health and medical problem. With disease-modifying treatment trials still unsuccessful at the present time and only medications to treat symptoms available, an emerging research initiative is to identify approaches to intervene before the damage begins, making it potentially possible to prevent AD.

Applicants should be highly motivated and creative, show an exceptional track record, and hold a doctoral degree in Computer Science, Bioinformatics, Engineering, Mathematics, Statistics, or related fields, and be interested in working in an interdisciplinary environment at the interface of Machine Learning and Personalized Medicine. Experience in developing algorithms for large-scale data analysis problems in biology and medicine is an asset. Academic excellence, a professional work attitude, and a proactive and self-driven work ethic are expected. The positions offer the opportunity to gain leadership and supervision experience in joint projects with younger scientists.

For details click here


Postdoctoral Scholar Imaging Data Science Radiation Oncology

The Division of Medical Physics within the Department of Radiation Oncology at University of Washington School of Medicine in Seattle, WA is currently recruiting a postdoctoral scholar in imaging data science under the supervision and mentorship of Dr. Stephen R. Bowen, Associate Professor of Radiation Oncology and Radiology (joint). We are seeking highly motivated individuals with strong track records of research in computational image analysis, computer vision, or machine learning. The successful candidate will participate in NIH-funded research projects on multimodality molecular and functional imaging for biomarker response-adaptive radiation therapy and immunotherapy within precision oncology. Specific applications include multiscale and spatially variant imaging-based treatment response prediction and (deep) machine learning of radiomic data for clinical outcome modeling. Imaging datasets will be collected, curated, and analyzed within the operational framework of several ongoing clinical trials.

Preferred

  • Experience with imaging data science analytics, including radiomics, machine learning, and deep learning approaches.
  • Mastery in one or more of the following scientific computing languages: Python, R, MATLAB, or related visual / object-oriented programming.
  • Familiarity with clinical oncology research and clinical trials.
  • Publication of peer-reviewed scientific journal articles on novel imaging data science methodologies or applications.

Qualifications

  • Ph.D. in Medical Physics, Physics, Computer Science, Data Science, Bioinformatics, Engineering, or a related field.
  • Proficiency in one of the following scientific computing languages: Python, R, MATLAB, or related visual / object-oriented programming.
  • Excellent oral and written communication skills.
  • Experience with presentation of original research at professional conferences.

For details click here


Posted on November 22, 2019

Post-doctoral researcher “Integrative Network Analysis for Gene Discovery in Wheat”

For a joint project of the VIB Center for Plant Systems Biology and BASF Agricultural Solutions Innovation Center Gent, we are looking for a postdoctoral researcher who will develop and implement computational pipelines to build and compare different biological networks for gene function analysis in cereals. This 3-year project, starting on 1 March 2020, is fully funded by BASF and VLAIO (Flanders Innovation & Entrepreneurship). The successful applicant will be part of the Comparative Network Biology lab led by Klaas Vandepoele in VIB, but will also closely work together with BASF data scientists and program leaders.

Job description

  • Collect and integrate public and private crop expression datasets
  • Develop computational pipelines to build and compare cross-species gene co-expression and regulatory networks to identify key transcription factors (TF)
  • Perform data analysis of DAP-seq high-thought experiments to identify TF binding sites and build TF regulatory networks
  • Perform/assistant data analysis on Y2H and build protein-protein interaction networks
  • Develop pipelines and methodologies to compare and integrate multiple biological networks
  • Integrative network analysis for gene function prediction and trait-associated gene identification
  • Closely work with both data scientists, biologists and wet-lab scientists in both VIB and BASF
  • Reporting of results through publications in peer-reviewed international journals.
  • Attending and presenting your results at international scientific events.

Profile

  • PhD in Bioinformatics, Computational biology or similar.
  • Good programming (Python, R) and Linux skills are a must
  • Familiar with reporting in Jupyter notebook, bitbucket and git system for code sharing and sustainable data analysis
  • Strong ability and experience in high-throughput biological network and NGS data analysis
  • Knowledge in plant/crop genetics and molecular biology is a plus
  • You are enthusiastic about scientific research, computational biology, and want to learn more about advanced biological concepts.
  • You have good writing and communication skills with both data scientists and biologists
  • You are proficient in English.

Application deadline: 31/12/2019 or until position has been filled.

For details click here


Postdoc in Computational biology and Bioinformatics

Applicants are invited to apply for a post-doctoral (i.e., postdoc) position in Abyzov lab at Mayo Clinic. The choice of project will depend on the applicant's interests and skills, however, the research must be purely computational and focus on one of the following main fields of computational biology: population/personal human omics, cancer omics, single cell and somatic omics, and the analysis of next-generation sequencing data. Specific sub-areas of interest are discovery, annotation, and the functional annotation of human genomic variants, cancer genomics, cancer evolution, somatic mosaicism in normal human cells.

The ideal applicant will have a Ph.D. in computational biology or bioinformatics, experience in one of the aforementioned research areas, demonstrate a record of peer-reviewed publications, and possess motivation for independent research. He or she should have a very strong understanding of biology and be skilled in programming and using computers to solve problems (e.g., experience with C/C++, Java, Python/Perl, R/ROOT, etc.). Oral and written proficiency in English is also a big plus. To apply, please email your CV, including a list of publications and details for three references, to abyzov dot alexej at mayo dot edu. Please include the phrase “PostDoc application” and your full name in the subject of the email.

For details click here


Posted on November 20, 2019

Computer Scientist / Bioinformatician IT and Cloudtechnology de.NBI Cloud

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 Omics IT and Data Management Core Facility is seeking a Computer Scientist / Bioinformatician IT and Cloudtechnology de.NBI Cloud (Ref-No. 2019-0360) The German Cancer Research Center (DKFZ) conducts innovative health research in the fields of computer science, genomics and personalized medicine. In this exciting research environment, highly complex analysis algorithms are developed and applied in big data analytics, artificial intelligence and deep learning in national and international contexts.

As a computer scientist / bioinformatician in the field of cloud computing, you support us in the implementation of data protection and information security measures on the way to certification. This position will be integrated into the cloud team at DFKZ. In close coordination with the de.NBI Cloud, with commercial providers and in particular with the HD-HuB Cloud locations at the DKFZ, at the University of Heidelberg and at the Berlin Institute for Health Research (BIH), concepts for information security, IT security and data protection are developed and implemented in accordance with the General Data Protection Regulation (GDPR).

Your profile:
Computer scientist / bioinformatician (university) or applicant with a comparable degree with knowledge in the administration of complex systems and the development of cloud environments as well as with a strong interest in the development and implementation of concepts within the framework of information security and data protection.

The position is limited to 31.12.2021.

For details click here


Postdoc Position in Evolutionary Genomics

The postdoc will utilize publicly-available genomes of numerous mammals as well as newly-sequenced genomes of several bats to discover the genomic basis of interesting phenotypic differences between these species. The postdoc will apply and further develop our genomics methods, and analyze results by integrating biomedical knowledge and generated functional genomics data. Promising candidate genes will be tested experimentally, either by the Postdoc or in collaboration. Funding is according to the German TVöD scale and available for at least 3 years.

We combine computational biology, comparative genomics and experiments to investigate how nature's fascinating phenotypic diversity evolved and how it is encoded in the genome. On the computational side, we align and annotate genome assemblies [1-3], develop and apply comparative genomic methods to discover key differences in genes and regulatory elements [4-9], and use statistical approaches to associate genomic to phenotypic differences [10,11]. On the experimental side, we use RNA-seq, ATAC-seq, functional assays and CRISPR-Cas9 to reveal the molecular function of genomic regions and to test causality between genomic and phenotypic differences [12,13]. Our group is part of the Bat1K project that aims at generating reference-quality genomes of all bats.

Requirements

Applicants should have a strong publication record and a degree in bioinformatics / computational biology, genomics or a related area. Excellent programming skills in a Linux environment as well as experience with shell scripting and Unix tools are required. Previous experience in large-scale comparative genomic data analysis is an advantage.

For details click here


Posted on  November 18, 2019

Bioinformatician for Single-Cell-Sequencing-Data Analysis

The German Cancer Research Center is the largest biomedical research institution in Germany. With approximately 3,000 employees, we operate an extensive scientific program in the field of cancer research. A joint position as postdoc/bioinformatician for computational single-cell sequencing analytics is available in the Computational Genomics and Systems Genetics group (https://www.dkfz.de/en/bioinformatik-genomik-systemgenetik) together with the Omics IT and Data Management Core Facility (ODCF). This project is connected to the Human Cell Atlas (https://www.humancellatlas.org), to which the Stegle group contributes as a member of the analysis working group. The Omics IT and Data Management Core Facility (ODCF) supports scientists in structuring and analyzing large omics datasets.

We are looking for a (senior)bioinformatician to guide a single-cell core group that is responsible for the coordination, the establishment and harmonization of (clinical) analysis and data management workflows for single-cell sequencing data. The successful candidate will be part of an interdisciplinary research team developing and applying a diverse range of state-of-the-art methodology to improve the analysis and integration of various data types with a focus on single-cell data. He/she will apply bioinformatics and statistical methods to analyze, interpret and integrate high-throughput ‘omics’ data, including whole genome, RNA and different types of single-cell sequencing data. The position can involve both collaborative involvement in research-centric single-cell projects and/or infrastructure research and development.

Your responsibilities:

  • Establishment of clinical omics-data analysis and integration workflows
  • Collaboration, experimental design and analysis of clinical single-cell projects
  • Infrastructure development, data management and/or integrative/interactive data visualization of multiple omics data
  • Development of cloud-based analysis workflows

Requirements:

The successful applicant will hold a Master as well as a doctoral degree or equivalent qualification in computer science, statistics, mathematics, physics, and/or engineering, or a degree in biological science with demonstrated experience in computational biology/bioinformatics.

Application deadline: 06.12.2019

For details click here


Postdoctoral Fellow and Bioinformatic Analyst position

We are looking for creative, energetic, and collaborative researchers to join our interdisciplinary team to understand the function of the genome, to map the cellular states in a body, and to elucidate the transcriptional control mechanisms underlying developmental processes and diseases.

1. Single Cell Analysis. Develop novel methods for analyzing, visualizing, and integrating single-cell resolution imaging data containing spatially resolved transcriptomic, morphological, chromatin, and/or functional information. Integrate sequencing- and imaging-based data types. Develop and maintain robust, efficient, and user-friendly software packages. Collaborate with basic and clinical scientists to solve various biomedical questions using single-cell analyses.

2. Cancer Epigenetics. Develop novel methods/software for analyzing and visualizing high-dimensional, multi-scale epigenomic data. Engage in collaborations with cancer biologists and physicians to investigate mechanisms underlying cancer initiation, progression, and treatment response.

Please send a cover letter and your CV via email to Dr. Guo-Cheng Yuan. If you are applying for either Postdoctoral Fellow or Bioinformatic Analyst position, please also include the contact information for two references.

For details click here


Posted on  November 15, 2019

Postdoctoral Scholar in Genomics and Bioinformatics

The Penn State Animal Diagnostic Laboratory (ADL) at University Park and the Pennsylvania Veterinary Laboratory (PVL) at Harrisburg are collaborating to develop Next-generation Sequencing based innovative diagnostic tests for bacterial and viral pathogens of veterinary and public health importance. Briefly, the project involves application of whole genome sequencing to study genomes, metagenomes to identify and study pathogens in clinical samples with an emphasis on virulence determinants, bacterial serotype determination, identify and catalog antimicrobial resistance genes, and decipher the molecular epidemiology of bacterial and viral pathogens as it relates to disease outbreaks. Computational/bioinformatics approaches and mathematical modelling of infectious diseases are also included in the overall project.

Applications are sought from highly motivated individuals with a strong experience and interest in genomics and bioinformatics of infectious diseases. Specific responsibilities include: Coordinate the genomics and bioinformatics activities of bacteriology and virology sections of ADL and PVL, Develop and validate a metagenomics approach to identify bacterial and viral agents in clinical samples, and Assist in the data analysis of genomics, transcriptomics and proteomics projects. Hands-on laboratory experience including library preparation for next generation sequencing, operating a next generation sequencing machine (experience with Illumia platform preferred) and bioinformatic analysis of genomic data is essential.

Job Number: 91957

For details click here


Postdoc - Big Data Analytics for Metabolomics & Exposomics

A Postdoctoral Fellow (""postdoc"") is a professional apprenticeship designed to provide recent Ph.D. recipients with an opportunity to develop further the research skills acquired in their doctoral programs or to learn new research techniques, in preparation for an academic or research career. In the process of further developing their own research skills, it is expected that Postdoctoral Fellows will also play a significant role in the performance of research at the University and augment the role of graduate faculty in providing research instruction to graduate students.

Postdoc appointments are characterized by all of the following conditions:

  • the appointee was recently (within the last eight years) awarded a Ph.D. or equivalent doctorate (e.g., Sc.D., M.D.);
  • the appointment is temporary;
  • the appointment involves substantially full-time research or scholarship;
  • the appointment is viewed as preparatory for a full-time academic and/or research career;
  • the appointee works under the supervision of a faculty member; and
  • the appointee has the freedom and is expected to publish the results of his or her research or scholarship during the period of appointment.

Other Work/Responsibilities

The primary research responsibilities of the successful candidates are to develop Big Data Analytics capabilities for metabolomics and exposomics and publish the results.
In particular, the successful candidates are to develop computational algorithms and software tools for:
(1) extracting compound information from raw liquid-chromatography-mass spectrometry (LC-MS) and gas chromatography-mass spectrometry (GC-MS) exposomics and metabolomics data;
(2) annotating and identifying ions based on existing large-scale compound and mass spectral libraries;
(3) predicting possible structures or substructures of compounds using accurate mass, retention time, isotopic distribution, fragmentation spectra and other meta- data

Position Number POST40

For details click here


Posted on  November, 2019

Post-doc position Population Genomics and Demographic History

We are looking for an enthusiastic post-doc interested in the use of genetic and genomic data to reconstruct the demographic history of species. The candidate will work on questions related to endangered species (with a focus on Madagascar), human evolution or domestication. The questions we ask are related to the importance of population structure (connectivity, habitat fragmentation) and genomic diversity: how do ancient climatic events influence the genome of present-day species? Can we differentiate between the genomic signature of population size changes and changes in connectivity? Should we represent recent human evolution as changes in connectivity or changes in population size change? These are some of the questions that we try to ask within the DISPO project (Demographic Inference in Structured Populations).

Our group has been working on the concept of IICR (inverse instantaneous coalescence rate, Mazet et al., 2016 Heredity), which can be used to address these questions. The candidate will thus learn to use the IICR but could or better should bring his/her own experience to make progress in these issues. Enthusiasm and critical mind are crucial.

Interested candidates should contact L. Chikhi for questions: chikhi(at)igc.gulbenkian.pt

The current deadline is 31/10/2019, to be extended to the 31/12/2019.

For details click here


Postdoc Bioinformatician

The Child Health Research Center in the Department of Pediatrics at the University of Virginia is seeking a Bioinformatician to work in the laboratory of Dr. Ariel Gomez to investigate the epigenetic and genetic determinants of cell fate. The candidate will also interact and advise other investigators within the center. The incumbent will collaborate with researchers in designing and implementing research projects, analysis of large data sets, and presentation and publishing of results. The candidate will be involved in the design of research projects and supervise students and post-doctoral fellows and developing innovative approaches for data analysis. Experience in analysis of genome wide analysis resulting from ATAC-seq, Chip-seq and single cell RNA-seq and whole genome sequencing is a must.

Qualified candidates must have a PhD or MD degree by start date with experience in Computational Biology, Biostatistics, Biomedical Sciences, or a related field, and publications in peer-reviewed journals. The candidate must have demonstrated expertise in the field of biology. Excellent written and verbal communication skills are required. Candidates with postdoctoral experience in bioinformatics applied to epigenetics will also be considered competitive.

Job ID: R0011262

For details click here


Postdoctoral position in Computational Biology

A postdoctoral position is available in the research group of Dr. Ivan Ovcharenko at the National Institutes of Health (NIH). Our current research projects include computational studies of epigenetic and sequence-based mechanisms of gene regulation. We are developing computational approaches to decipher the regulatory landscape of the human genome. By combining next generation sequencing data with a large body of experimental enhancer characterization, our computational approaches target transcriptional mechanisms of tissue-specific regulatory signals and cell-type differences in gene regulation.

Candidates with a PhD in Computational Biology, Deep Learning, Population Genetics, Bioinformatics, or a related field and less than 5 years of prior postdoctoral experience are encouraged to apply. Advanced programming and genome data analysis skills are desirable.

This position is supported by the Intramural NIH Research Program and includes stable, multi-year funding, outstanding benefits and compensation. NIH is an Equal Opportunity Employer and encourages applications from women and minorities.

If interested, please email your CV and the names of 3 references to Ivan Ovcharenko at ovcharen@nih.gov.

For details click here


Posted on October 18, 2019

Postdoc in Bioinformatics

We seek a motivated and independent candidate for a 2-year postdoc position in bioinformatics available at the Department of Molecular Medicine (MOMA), Aarhus University. The position is available from January 1st, 2020 or as soon as possible thereafter. The postdoc will work on an exciting project concerning the evolution of germline mutation processes in humans. This can include comparisons with datasets of human somatic mutations or germline mutations from other species. Depending on your interests, focus can be on methods development, large-scale data analysis, or both.

Your competences
We are looking for a highly motivated applicant that have or are about to obtain a PhD in a relevant subject, which could be bioinformatics, population genetics, statistical genetics or a similar subject.

Furthermore you should have:

  • Experience with genomic data analysis.
  • Good programming skills
  • Fluency in spoken and written English

Deadline: 31 October 2019

For details click here


Bioinformatician/data scientist for research support and training

The Luxembourg Centre for Systems Biomedicine (LCSB) of the University of Luxembourg has created a local representation in the European bioinformatics infrastructure ELIXIR. This Luxembourgish ELIXIR Node, hosted in the LCSB, is dedicated to translational medicine data management and provide infrastructure, training and services. The Bioinformatics Core Facility of the LCSB is expanding its research activities and is seeking a highly motivated a developer/researcher (Position: Research and Development specialist on project).

Your Profile

  • A Master degree in bioinformatics or related biological disciplines and extensive experience in translational research environments
  • Solid experience in data analysis environments commonly used in bioinformatics and systems biology, strong in either Python, R or Matlab as well as the Unix environments
  • A strong working knowledge of statistical concepts
  • Laboratory experience in omics environments – sequencing, transcriptomics or proteomics is a plus
  • Familiarity with training environments, e.g. as instructor for Carpentry courses, Elixir Train-the-Trainer courses or as teacher in university-level education
  • Interdisciplinary communication and presentation skills
  • Excellent working knowledge of English

We offer

  • Fully funded position at the Bioinformatics Core Facility of the LCSB, headed by Prof. Reinhard Schneider
  • A multi-disciplinary international research environment, connecting institutes in Luxembourg and Europe through Elixir
  • The University of Luxembourg offers competitive salaries and is an equal opportunity employer

Please apply online until 15/11/2019.

For details click here


Posted on October 16, 2019

Bioinformatician in translational genomics

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.

CTG (https://www.ctg.lu.se/) is a prioritized research infrastructure at the Faculty of Medicine at Lund University, co-funded by Lund University, Region Skåne and SciLifeLab. At the center there is great expertise in sequencing and genomics technologies, and from a national and international perspective, the unit is at the forefront of technology with access to very powerful sequencing instruments (eg Illumina's NovaSeq as well as long read instruments, eg Oxford Nanopore GridION) and methods for single cell analysis. For high performance computations, the center uses a dedicated cluster at Lund University's super computer center (LUNARC).

Requirements

The applicant shall have:

  • Doctoral degree (PhD) from appropriate research field (ie with bioinformatics and genomics as a base) or equivalent (at least 4 years) work experience or advanced studies in bioinformatics, from business, healthcare or academia
  • Experience in working with sequencing data (e.g. WGS, WES or RNA-seq)
  • Experience in working with a terminal based in Linux environment and in working with at least one scripting language (eg Python, Perl or R)

Reference number PA2019/3381

Last application date 04.Nov.2019

For details click here


POSTDOCTORAL ASSOCIATE in Structural Bioinformatics

Established in 1930, Duke University School of Medicine is the youngest of the nation’s top medical schools. Ranked tenth among its peers, the School takes pride in being an inclusive community of outstanding learners, investigators, clinicians, and staff where traditional barriers are low, interdisciplinary collaboration is embraced, and great ideas accelerate translation of fundamental scientific discoveries to improve humanhealth locally and around the globe.

The Postd octoral Appointee holds a PhD or equivalent doctorate (e.g.ScD, MD, DVM) . Candidates with non-US degrees may be required to provide proof of de gree equivalency.1. A candidate may also be appointed to a postdoctoral position if the candidate has completed all of the requirements for a de gree but the degree has not been formally conferred: in this case, the c andidate may present evidence of completion of the degree requirements, together with a statement documenting the date on which the degree is to be conferred.If the degree is not conferred by this projected date, the postdoctoral appointment may be terminated.

Needed to enablethis work:

Background in structural bioinformatics or structural biology Potential tocontribute bothto technical enhancements in the Phenixsoftware system and theMolProbity web service, and also to b asic research that coupleslarge-scale analysis of macromolecular conform ations with development of newmodel-validation tools.

1) Proficiency inat least two of our most-used programming languages (primar y: Python and C++;secondary: C, PHP, Java, and Javascript)

2) Experience insolving or analyzing macromolecular 3D structure.

For details click here


Posted on October 14, 2019

Postdoc Position in Computational Cancer Biology

A postdoc position is computational cancer biology is available in the lab of Dr. Ashley Laughney at the Weill Cornell Medical College (WCM) in NYC. The lab integrates powerful systems biology methods – including massively parallel, single cell sequencing and quantitative imaging technologies – with mouse models of metastasis to better understand lineage plasticity and immune recognition across cell states observed in development and cancer progression.

We are eager to add innovative, determined and enthusiastic researchers to our highly inter-disciplinary team and are especially interested in recruiting highly motivated candidates with backgrounds in constructing gene regulatory networks, bioinformatics analysis of single cell transcriptomic and epigenetic data, high content imaging and feature extraction methods, and machine learning. Postdoc applicants should hold a PhD, MD or doctoral level equivalent in the areas listed above or other related fields.

Interested in joining the fun? Email LaughneyLabPositions@gmail.com the following as a single PDF: (1) a cover letter describing your current and future research interests, (2) your CV, and (3) names and contact information for three references and (4) up to two reprints. Additionally, please arrange for three letters of reference to be emailed on your behalf. Postdoctoral applications will not be reviewed until all letters of reference are received. We are open to applicants from a variety of backgrounds, including both theory and experiment.

For details click here


Postdoctoral Fellow, Human Genetics (Bioinformatics)

The Institute for Health Innovation’s Healthy Nevada Project in Reno, NV is searching for Postdoctoral Fellows specializing in Human Genetics to join the research team located at the Desert Research Institute in Reno, Nevada. The Healthy Nevada Project focuses on finding associations between an extensive Electronic Medical Record database and a growing population of sequenced participants using the Helix Exome+ platform. There are two open positions broadly focused on: 1) examining relationships between genotype and phenotype in the Healthy Nevada population; 2) identifying Gene X Environment interactions as part of a newly funded NIH R01 project to examine genetic effects and environmental carcinogens with cancer.

Successful candidates will use and develop statistical genetics tools and develop techniques to examine human genotypes and phenotypes to generate focused hypotheses driving the identification of disease targets. The postdoctoral fellows will collaborate with a team of computational molecular biologists and clinical data scientists, clinicians and physicians to study medical and sequencing data to uncover links to and regulation of diseases relevant to Northern Nevada. This position will be responsible for supporting high-level genomics and phenomics research and publications.

Required Qualifications

  • Ph.D. in bioinformatics, molecular biology, biochemistry, computer science, or related fields from and accredited institution
  • Minimum three years of experience with genomic data or electronic medical data
  • Proven research experience and publication records

Preferred Skills

  • Genetics/genomics data analysis: GWAS, Whole Genome/Exome Studies, WGES, PheWAS
  • Knowledge and experience with gene-collapsing methods
  • Strong R programming skills
  • Well-versed in Unix/Linux environments and shell scripting
  • Experience using bioinformatics tools and databases: PLINK, PSEQ, IMPUTE2, BEAGLE, UCSC Genome Browser, dbSNP, UK Biobank
  • Python and/or Perl experience

Post code: R0118752

For details click here


Posted on October 11, 2019

Postdoctoral Scientist - Bioinformatics & Functional Genomics

Principle Investigator, Dr. Megan Hitchins, is a member of the faculty of Biomedical Sciences at Cedars-Sinai Medical Center and is situated with the Center for Bioinformatics and Functional Genomics (BFG). The BFG brings together teams specializing in bioinformatics and computational biology, functional analysis of the genome and epigenome coupled with next generation sequencing, epigenetic profiling, and genome editing, to provide a complete pipeline for identifying the functional consequences of genetic and epigenetic variation in cancer risk, subtypes, and outcomes. Dr. Hitchins’ group focuses in particular on the role of genetic and epigenetic variants in high-risk cancers, and on DNA methylation markers of cancer, as applied to the detection of circulating tumor DNAs.

As an appointed Postdoc, you will work with Dr. Hitchins on germline genetic variation, RNA expression, and DNA methylation associated with cancer phenotypes. You will be supported by a Research Associate/Laboratory Manager and work within a highly integrated and multi-disciplinary group comprising senior and junior post-doctoral scientists, research technicians, clinical fellows and graduate students. You will be expected to conduct wet-lab research and statistical analyses of data (both directed and independent) under the mentorship of Dr. Megan Hitchins, submit and publish papers and posters, and make oral presentations. This post-holder must be well organized and be able to demonstrate written and oral presentation skills.

Essential job duties and responsibilities:
  • Lead research project(s) in the genomics and epigenomics of cancer that form part of the research program under the mentorship of the Principal Investigator. This will include the undertaking of intellectual, technical (wet-lab), and analytical aspects of the project(s)
  • Draft manuscripts for publication and author or co-author
  • Contribute to the drafting of grant proposals
  • Attend, contribute to, and present at laboratory group meetings and departmental meetings
  • Present research findings at national and international conferences
  • Provide miscellaneous research support (ad hoc data analysis, hypothesis development, programming, troubleshooting, etc.)
  • Lead and train incoming Graduates Students, Research Fellows, lower level Research Associates, and other related support staff and may be requested by Pl to take on specific day-to-day supervisory activities
  • Comply with all safety standards and procedures
  • Assist with the establishment and maintenance of IRB proposals and protocols relating to projects in the laboratory
  • Assist with the maintenance of database and accompanying biorepository

Educational Requirements:

  • Ph.D in a relevant area (Human Genetics/Epigenetics/Cancer Biology/Molecular or Cellular Biology)
Experience:
  • At least 4 years of wet-lab experience, which may include the Ph.D training period
  • Ph.D. in a relevant area (Human Genetics/Epigenetics/Cancer Biology/Molecular or Cellular Biology)
  • At least 4 years of wet-lab experience, which may include the Ph.D training period

Requisition # 19002437

For details click here


Postdoctoral Fellow 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 Postdoctoral fellow to work on an exciting project that aims at developing a computational framework for modeling stem cell-niche interactions to understand the mechanisms of tissue homeostasis and regeneration. In particular, the selected candidate shall develop a cell-cell interaction network-based computational approach, using single-cell transcriptomics data, to model cell populations dynamics and design strategies for cell rejuvenation. Research will be focused on stem cells of skeletal muscle and to design strategies for enhancing regeneration in the aging muscle tissue. In addition, he/she will participate in the project management and planning, including the supervision of one Ph.D. student. This is a collaborative project with the Universitat Pompeu Fabra in Barcelona, where the experimental validation of the computational predictions will be conducted.

Your Profile

  • Ph.D. degree in computer science, engineering, physics or a related discipline
  • Strong computational skills
  • Prior experience in mathematical modelling of biological networks is strongly desired
  • A strong first-author publication record in the fields of Bioinformatics and Computational Biology
  • Excellent working knowledge in English

All applications should be sent in electronic version before December 1st, 2019.

Ref: 50015159

For details click here


Posted on October 09, 2019

Postdoctoral Fellow - Computational and Statistical Cancer Genomics

The Center for Cancer Research (CCR) is working to solve the most pressing problems in the field through basic, translational and clinical cancer research to create the cancer medicines of tomorrow and is dedicated to preparing the next generation of cancer researchers. Read more about CCR, the benefits of working at CCR and hear from our staff on their CCR experiences. ​

Successful candidates will have the advantage of working with a world-leading team in computational cancer biology and collaborate with experts in statistics, machine learning and related algorithms, etc., while at the same time having ready access to clinical cancer samples, including fresh tumor specimens from the operating theater, with which one can address new questions in real time. Our group is evolving to lead a novel and comprehensive multi-omics sequencing platform of patient tumors at the NCI, which will be unprecedented in its extent and unique possibilities.

Qualifications for this position include Doctor of Philosophy (Ph.D.) in computational sciences or related fields. Candidates should be proficient in bioinformatics, data analysis, algorithms, combinatorial optimization, machine learning and computational biology. Candidates with a strong background and track record in big data analysis, especially in the context of cancer genomics as well as other -omics, will be preferentially considered. A new postdoctoral fellow is expected to be highly motivated and productive, work independently as well as collaboratively with other lab members, and have a strong work ethic and intellectual commitment to the cancer research. Proficient communication in both spoken and written English is strictly required, and excellent interpersonal and organizational skills are highly desired.

For details click here


Postdoctoral Fellow - Cancer Genomics and Epigenomics

The Center for Cancer Research (CCR) is working to solve the most pressing problems in the field through basic, translational and clinical cancer research to create the cancer medicines of tomorrow and is dedicated to preparing the next generation of cancer researchers. Read more about CCR, the benefits of working at CCR and hear from our staff on their CCR experiences. ​

The CCR is dedicated to preparing the next generation of cancer researchers and offers a training environment that is second-to-none in quality of science and mentoring by outstanding principal investigators, including nine members of the National Academy of Science and eight members of the National Academy of Medicine. CCR offers fellows access to cutting-edge technologies and cores, a highly collaborative environment, awards and research forums to recognize outstanding post docs, continuous scientific symposia and lectures featuring leading researchers, a strong commitment to translational research, and a vibrant clinical research program housed in the world’s largest dedicated research hospital, the NIH Clinical Center.

Candidates should have a Ph.D. and/or M.D. degree in molecular biology, cancer biology or a related field, received within the last three years or scheduled to receive very soon. Successful candidates should have a deep understanding and experience in various genomic and epigenomic technologies, such as whole-genome sequencing, ChIP-seq and single-cell sequencing. A new postdoctoral fellow is expected to be highly motivated and productive in pursuing his/her research projects, work independently as well as collaboratively with other lab members, and share the lab’s interest and vision for the future of cancer classification and diagnostics. Proficient communication in both spoken and written English is strictly required, and informatic analysis skills of huge datasets will be a plus.

For details click here


Posted on October 07, 2019

Senior Bioinformatics Analyst

Weill Cornell Medicine is a comprehensive academic medical center that's committed to excellence in patient care, scientific discovery, and the education of future physicians in New York City and around the world. Our doctors and scientists-faculty from Weill Cornell Medical College, Weill Cornell Graduate School of Medical Sciences, and the Weill Cornell Physician Organization-are engaged in world-class clinical care and cutting-edge research that connect patients to the latest treatment innovations and prevention strategies.

Job Responsibilities

  • Responsible for biostatistical analysis and data interpretation for large data sets. Performs genomic analyses including mutation analyses, integrates datasets and generates figures summarizing results and key findings.
  • Implements pipelines for detecting and annotating mutations from single patient, whole-exome sequencing datasets.
  • Implements primary processing pipeline and quality control; runs pipeline(s) on all new samples.
  • Implements procedures for disaster recovery and resuming failed jobs.
  • Works closely with bioinformatics team(s) to define specifications for information systems, relational datasets, and sequencing analysis.
  • Develops novel algorithms and tools for high throughput data analysis.
  • Explores new computing platforms, performs benchmarking and implements data sharing.
  • Performs other related duties as assigned.

Education

  • Bachelor's Degree in related field

Experience

B.S. in molecular biology, genetics, bioinformatics, biomedical engineering or computer science desired. MS or PhD in systems biology, bioinformatics or computer biology is highly desired.

Approximately 3 years of related experience.

Bioinformatics analysis expertise as demonstrated by multiple published papers.

Excellent programming expertise in at least one of the following languages: C, C++, Java or Python.

Experience in biology and/or cancer biology is preferred.

Experience working in an academic environment is highly desired.

Previous experience in designing and building bioinformatics workflows preferred.

Previous experience analyzing and summarizing genomic datasets preferred.

Req Number 26581

For details click here


Computational Postdoctoral Associate

About the Center for Microbiome Informatics and Therapeutics (CMIT) was founded in 2014 to deliver therapeutics to patients with non-infectious, chronic, microbiome-associated disease. Incidence of microbiome-associated diseases like inflammatory bowel disease, Type 1 and Type 2 diabetes, autism, allergy, and asthma are on the rise in urban and industrialized populations and there is an urgent need for a new kind of intervention that is not only safe and effective but low-cost. We aim to do this by targeting the microbiome itself to restore health.

Apply your computational and mathematical skills to the analysis of large multimodal datasets to decipher interactions between the human microbiome and the human body, advancing translational microbiome research at the Center for Microbiome Informatics and Therapeutics.

Requirements

  • Ph.D. in Computer Science, Bioinformatics, Mathematics, Statistics or another relevant field

  • Experience with analyzing complex datasets

  • Familiarity with, or strong desire to learn about, next generation sequencing data analysis tools

  • Comfortable applying relevant statistical methods

  • Fluency in Unix, standard bioinformatics tools, and programing languages (primarily Python)

  • Outstanding written and oral English communication abilities

  • Independent, creative, highly-motivated, highly collaborative, and flexible team member

  • Interest in clinical trial design, patient-powered research, and the human microbiome

  • Experience in high-performance and/or cloud computing is helpful

Job ID: 0180

For details click here


Posted on October 04, 2019

Bioinformatician:  Proteomics data pipelines

We are seeking an enthusiastic Bioinformatician to join the Proteomics Team at the European Bioinformatics Institute (EMBL-EBI). The team is responsible of the maintenance and further development of the PRIDE (PRoteomics IDEntifications) database and related tools and resources. PRIDE is a world-leading international proteomics database, a founding member of the ProteomeXchange Consortium that is capturing large-scale mass spectrometry (MS)-based proteomics data from the scientific community and currently managing hundreds of TBs of data. In addition, the team aims to re-use and integrate proteomics data in other EMBL-EBI added-value resources such as UniProt, Ensembl and Expression Atlas.

The post holder will be working in the context of a BBSRC/NSF grant called “PTMExchange” which aims to: (i) analyse public proteomics datasets with the objective of disseminating high-quality PTM (post-translational modification) data from PRIDE into UniProt; and (ii) develop all the related infrastructure, including further developments in PRIDE, ProteomeXchange and the related data pipelines. The post holder is also expected to collaborate closely with the other partners in the grant and potentially other external stakeholders. The post holder may also have to contribute to other tasks related to the maintenance and development of the services and tools offered by the team.

Responsibilities:

  • Further develop and benchmark open proteomics data analysis pipelines, envisioned for the analysis of PTM data.
  • Develop infrastructure for the PTMExchange project, including further developments in PRIDE and ProteomeXchange.
  • Analyse public proteomics datasets.
  • Collaborate with the EMBL-EBI UniProt team to disseminate and integrate proteomics data from PRIDE into UniProt.

You must have a degree in computer science or bioinformatics and be able to demonstrate a minimum of 3 years’ experience in software development and/or bioinformatics data analysis, ideally with some knowledge of cloud technologies.

Closing Date: 29 October 2019

Reference Number: EBI01514

For details click here


Bioinformatician

The Erasmus MC Cancer Computational Biology Center (CCBC) is a bioinformatics and computational biology research facility. CCBC aims to innovate, facilitate and enhance omics-based cancer research, including genomics and proteomics, within the Erasmus Medical Center Cancer Institute. The objective is to develop and maintain a structured, dedicated and robust infrastructure for combining ongoing activities and creating synergy with different cancer research groups.

As a Bioinformatician you will collaborate in a multi-disciplinary team and should contribute significantly to solve general and specific questions within the cancer research field using your bioinformatics expertise. To accomplish this task, new in-house and publicly available Whole Genome Sequencing, RNA-seq, NGS single cell and proteomics data sets will be interrogated using both publicly and in-house developed computational methods. Furthermore you will develop tools to create and support a sustainable bioinformatics environment that strongly contributes to innovative computational cancer research. You will carry out state-of-the-art work on computational cancer biology using your excellent computer science skills. In a inspiring work environment, you will be a crucial member of a team that facilitates ongoing bioinformatics efforts and build robust long-lasting CCBC infrastructure.

Qualifications and skills: You have a BSc or MSc degree in Informatics, Bioinformatics or related field with, at least, two years of experience in (Bio)informatics, Statistics or Computer Science. Furthermore demonstrated excellent programming skills in R, Bash and preferably in Python and/or Java are required, together with proven experience in relational databases management systems, such as MySQL or PostgreSQL and Linux operating systems. Experience in analyzing next-generation sequencing data or mass spectrometry-based proteomics data is also a prerequisite.

For details click here


Posted on October 02, 2019

Postdoctoral studies in bioinformatics to understand T cell biology

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.

Duties The postdoc will be collaborating with wet-lab scientists in both labs. The postdoc is expected to plan, execute and interpret bioinformatic analyses of primarily single-cell RNA sequencing data obtained from T cell receptor and mRNA sequences through Illumina sequencing of libraries obtained through the 10x Genomics workflow. In addition, the postdoc is expected to perform bioinformatic analyses of other datasets available in the labs. There will also be possibilities to analyze epigenetic data, primarily obtained using the ATAC-Seq platform. The postdoc is expected to carefully document the analyses, and to communicate the results within and outside of the research group. The postdoc is expected to work both independently, and as a collaborative and helpful team member. The duties furthermore include actively taking part in research meetings, contributing to the well-functioning of the local research environment, and assisting/training/supervising other lab members in minor computational analyses.

We are looking for a highly motivated, ambitious and talented person with excellent theoretical background and practical experience in bioinformatics, and genuine interest in T cell immunology. Prior experience in working with 10x-based sequencing datasets, ideally including feature barcoding will be highly valued. Excellent communication skills that allow for productive interactions with biologists lacking bioinformatics background will be key. This includes the willingness and ability to explain, justify and discuss analyses/model choices with other lab members and supervisors. The position requires dedication to the project, a high level of accuracy and attention to detail, and a strong desire to excel. A personal fit into the team will be of importance. A proactive and problem-solving attitude will be valued highly. Excellent communication skills in both spoken and written English are required.

Reference number 2-4902/2019

Last application date 27.Oct.2019

For details click here


Data Analyst / Bioinformatics Specialist

The Montgomery lab is looking for a Data Analyst / Bioinformatics Specialist to conduct genetic analyses, perform power calculations and statistics, present data and prepare reports, work independently and as a team player and perform other duties as assigned by supervisor. For additional information please visit: http://omrf.org/research-faculty/scientists/montgomery-courtney-gray/ .

Bachelor’s degree in Math, Statistics, MIS, Computer Science, Biostatistics, Epidemiology or related field and one year of relevant statistical and/or analysis experience and 3 – 5 years of relevant experience Applied analysis experience essential. Superb computer skills including experience with R, S-plus or similar statistical package required. Must have excellent communication skills and the ability to deal with diverse personalities and cultures.

Posting Number 000041

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Posted on September  30, 2019

Post-Doc Research Associate - Agricultural Bioinformatics & Data Sharing

The Department of Statistics and the Department of Agronomy and Horticulture at the University of Nebraska-Lincoln are pleased to recruit candidates for a postdoctoral position in agricultural bioinformatics and modern data management and sharing. This position is supported by the Quantitative Life Sciences Initiative, a university-wide program supporting the integration of the data and life sciences. We are seeking candidates with expertise in crop genetics, bioinformatics, and statistics, who have demonstrated a high level of skill in data management, bioinformatics and computational biology, and FAIR data sharing in the plant sciences.

The successful candidate will be expected to teach at least one regular course per academic year in bioinformatics and computational biology. In addition, the successful candidate will participate in program and curriculum development, including graduate seminars and workshops.

Minimum Required Qualifications:

• PhD in Statistics, Bioinformatics, Computational Biology, or closely related field.
• Experience with one or more data types in plant breeding and genetics and FAIR data principles, as demonstrated by refereed papers, presentations, or other completed projects, e.g., PhD thesis.
• Computing and methodological skills appropriate to the sharing and analysis of data types with which the candidate has experience.

Requisition Number:  F_190162

Application Review Date: 10/31/2019

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Computational Scientist/Bioinformatician

We are seeking a Computational Scientist to work in Professor Karlsson Hedestam’s group at the Department of Microbiology, Tumor and Cell Biology (MTC) at Karolinska Institutet in Stockholm. The group studies adaptive immunity and immunogenetics. For more information about the research, see http://ki.se/research/karlsson-hedestam

Adaptive immune responses depend on highly polymorphic gene segments that recombine during lymphocyte development to form highly diverse repertoires of antigen receptors. The Karlsson Hedestam group has developed methodology to study these gene segments in healthy populations and patient cohorts using next generation sequencing (NGS) and computational analyses (see www.IgDiscover.se). These projects generate large amounts of NGS data and the group currently needs to expand its bioinformatics support and increase its ability to develop new algorithms to solve bioinformatic problems for several ongoing research projects.

The successful candidate will have a solid background in statistics and computational biology, expertise in statistical and bioinformatics software and an ability to work in a multidisciplinary research environment. The individual should be highly driven and motivated to solve problems, as well as be able to work independently while also being able to communicate effectively with other members of the team. The candidate should have documented research experience over the past two years.A proven track-record of developing software tools that have been published in high-quality journals is valued. Demonstrable expertise implementing algorithms for sequence alignment, sequence clustering, and distance calculations will be preferred, as will experience with phylogenetic inference and NGS analysis. Extensive experience with Python, R or similar programming languages is required.

Assessment criteria

A selection will be made among qualified applicants using the following bases of assessment:

- Knowledge of Python, R and bash as well as experience with Github or related  resources

- Experience of working in a Linux environment

- Documented experience in applying computational analysis to NGS data

Reference number 2-4869/2019

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

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Posted on September  27, 2019

Bioinformatics, Postdoctoral Research Fellow

Founded in 1957, UNLV is a doctoral-degree-granting institution comprised of approximately 31,000 students and more than 3,900 faculty and staff. To date, UNLV has conferred more than 136,000 degrees, producing more than 120,000 alumni around the world. UNLV is classified by the Carnegie Foundation for the Advancement of Teaching as an R1 research university with very high research activity.

The Postdoctoral Research Fellow will conduct bioinformatics research for the Personalized Medicine COBRE (Center of Biomedical Research Excellence) Genome Analysis and Acquisition Core at the Nevada Personalized Medicine Institute at UNLV. The successful candidate will be experienced in bioinformatics analysis, genetic data analysis, make corresponding tables and figures, and prepare reports for projects. The postdoc will be responsible for analyzing Next Generation Sequencing (NGS) data, data processing and analysis, including building analysis pipelines, databases, and visual/graphic display. Additionally, the postdoc will assist with database and server hardware management; install and test new versions of the database and ensure data is secure. They will contribute to research grants and publications, and assist with writing grant proposals and journal articles.

QUALIFICATIONS

A Doctoral degree (e.g., Ph.D.) received within the last five years in Bioinformatics, Biostatistics, or Computer Sciences is required.   Credentials must be obtained prior to the start of employment. The ideal candidate should also have the following knowledge, skills, and abilities:

  • Proven computational skills, programming skills (Python, C/C++, and R), and experience in performing data analyses of NGS data are required.
  • Practical experience in genomic data management, high-dimension data analysis is required.
  • Knowledge and experience in SAS programming, data analysis and statistical modeling are required.

For details click here


Research Scientist (f/m/d) Bioinformatics

Evotec is a leader in the discovery and development of novel small molecule drugs with operational sites in Europe and the US. The Company has built substantial drug discovery expertise and an industrialized platform that can drive new innovative small molecule compounds into the clinic. In addition, Evotec has built a deep internal knowledge base in the treatment of diseases related to neuroscience, pain, inflammation and metabolic diseases. Leveraging these skills and expertise the Company intends to deliver superior science-driven discovery alliances with pharmaceutical and biotechnology companies.

We are applying advanced methods in Transcriptomics, Proteomics, CRISPR and compound screening to generate large volumes of biological data. In close collaboration with wet-lab and project scientists, the bioinformatics team analyzes these data to generate knowledge about gene function and compound activities in various disease areas. As integral part of the data analysis, we develop our own pan-omics software platform.

Your key responsibilities

  • Develop tools and methods for multi-omics data analysis, e.g. high throughput RNA-Seq, Genomic Sequencing and Proteomics, within our interactive pan-omics platform
  • Apply these methods to large-scale multi-omics data sets within several projects
  • Work with researchers in interdisciplinary project teams in multiple research programs

​Your Qualifications

  • Master’s degree or PhD in bioinformatics, computational biology or a related natural science discipline
  • Experience in multi-omics data analysis and method development
  • Demonstrated strong programming skills in R and at least one additional programming language (e.g. Python, JavaScript)
  • Proficiency in working with bioinformatics tools and understanding of common bioinformatics algorithms

For details click here


Posted on September  25, 2019

Postdoctoral Scientists: Quantitative Biology/ Bioinformatics

Two Postdoctoral scientists positions in Quantitative Biology are available in the laboratory of Dr. Ebrahimi. The qualified candidates will be working on projects related to viral/cancer immunity and evolution. The overall aims of the projects are to develop and apply multi-omic approaches to mine and deconvolute complex datasets including genomic, transcriptomic, and proteomic data from viruses, hosts, and tumors to: a) discover population-specific virus-host interaction mechanisms and identify underlying genetic and evolutionary sources; b) delineate gene expression profiles in cancer and investigate their association with germline/somatic mutations, viral status, and other clinical data.

Texas Biomed provides unique research and training opportunities for postdocs, including access to exceptional resources such as BSL4, SNPRC (Southwest National Primate Research Center), a vigorous infectious disease program on HIV, malaria, schistosomiasis, Ebola, Zika, hepatitis C and TB, and outstanding imaging, computational, and sequencing facilities. Texas Biomed faculty have adjunct appointments at two universities in San Antonio (UTSA and UTHSCSA), which provide a wide range of additional training and career development opportunities for postdocs at Texas Biomed.

EDUCATION/EXPERIENCE/SKILLS: Required: Ph.D. in a quantitative science discipline such as bioinformatics, computer science, mathematics, statistics, physics, or engineering. Skills in working with large datasets and developing tools and algorithms for analysis of large datasets. Coding in one or more platforms, e.g. Python, R, Matlab. Passion for learning quantitative biology. Preferred: Ph.D. in quantitative biology or bioinformatics. Experience in analyzing RNAseq, GWAS, Hi-C and other large biological datasets. Familiarity with databases such as UCSC Genome Browser, 1000Genomes, TCGA, and ICGC. Experience in using standard bioinformatics packages such as Samtools, Cufflinks, Tophat. Knowledge of statistics. Knowledge of evolutionary biology, and viral/cancer immunity.

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Postdoctoral Research Associate I, Bioinformatics

The Center for Innovation in Brain Science (CIBS) is the intellectual home for Neuroscience research across the University of Arizona campus. We specialize in research focusing on a cure for four neurodegenerative diseases; Alzheimer’s Disease, Amyotrophic Lateral Sclerosis (ALS), Multiple Sclerosis, and Parkinson’s Disease. Our mission is to bring the innovations in brain science of the future to those who need a cure today. We are an interdisciplinary lab composed by computer scientists, bioinformaticians and biologists dedicated to researches from developing advanced mathematic algorithms in statistics/machine learning to applied real-world disease modeling. Our researches are fund by NIH. We work with a wide spectrum of disease conditions with a focus on neurodegenerative diseases (Alzheimer’s disease, MS, ALS, and Parkinson Disease). We collaborate with clinicians, wet-labs at UA as well as labs at world-class institutions, such as Columbia, Stanford, Duke, Mayo Clinic, Harvard/Broad, Emory, and Baylor, providing enormous opportunities for exciting research projects and high impact publications.

We are seeking a motivated and high-quality post doc to join our team to work on computational systems biology and human diseases modeling. The expectation is to focus on real-world disease modeling and have a strong background in biology and/or bioinformatics. The candidate will be responsible for processing and analyzing multi-scale omics data and applying cutting-edge methods to reconstruct disease models and generate in-silico hypothesis on drug targets. The successful candidate will be supervised by Dr. Rui Chang and will have opportunity to develop their own research ideas as they fit within the general research interests of our group. The post is based at the University of Arizona, Tucson campus, within the Center for Innovation in Brain Science.

Minimum Qualifications:

PhD degree in biology, bioinformatics, biostatistics, computational biology or a related field.

Demonstrated experience in writing scientific papers in analyzing omics data towards real-world disease modeling.

Preferred Qualifications: Working experiences in analyzing NGS data, including not limited to WGS, WES, RNA-seq data.

Familiarity with sequencing data tools such as Picard tools, SAMtools, FastQC, aligners such as BWA, Tophat, STAR, variant calling pipelines such as GATK tools / Queue, SAMtools mpileup, annotation packages and resources such as Ensembl, GENCODE, BLAST, GSEA, mSigDB, GWAS catalog, OMIM, KEGG, online data resources such as GTEx, TCGA, GEO, dbGaP, genotype processing, QC and analysis tools such as PLINK, IMPUTE2, relevant R packages such as limma, edgeR, MatrixEqtl, RNAseq tools such as featureCounts, HTSeq, Cufflinks.

For details click here


Posted on September  23, 2019

Postdoctoral Fellow in single cell genomics and statistical genetics of complex eye diseases

We are seeking a highly motivated and creative postdoctoral fellow to jointhe Segrè lab interested insingle cell genomicsand integrative analysisoffunctional genomics andhuman genetics to uncoverkeycausal mechanisms and pathogenic cell types forcomplex eye diseases. The Segrè lab ispart ofthe Ocular Genomic Institute and the Department of Ophthalmology at Massachusetts Eye and Ear (MEE) and is affiliated with the Broad Institute of Harvard and MIT. MEE isa teaching hospital of Harvard Medical School and is an international leader for treatment and research in both Ophthalmology and Otolaryngology. The Segrè lab develops novelstatistical and computational methods that integrate genome-wide association andsequencing studies (GWAS) with functional genomics (e.g., eQTLs) datafrom relevant tissues and cell types, to identify new causal genes and regulatory mechanisms of common eye diseases, including glaucoma, age-related macular degeneration, and diabetic retinopathy, with the ultimate goal of proposing new preventative and therapeutic targets for eye disease.

The successful candidate shouldhavea strong background in statistics, statistical genetics,mathematics, computational genomics, bioinformatics, or a related quantitative field, strong programming skills, and be excited to contribute to advancing science and medicine of complex eye diseases.Research projectswill involve developing statistical and computational methods for analyzingsingle cell RNA-seqof human eye tissuesand whole genomesequencing data,and integration with genome-wideassociation studies to detectgene expressionchanges and genetic regulation associated with differentocular cell types and complex eye diseases.

REQUIRED EDUCATION AND EXPERIENCE:

•Ph.D.in (bio)statistics,statistical genetics, human genetics, computationalgenomics,bioinformatics, mathematics, computer science, or a related quantitative discipline required.

•Strong programming skills and in-depth experience with severalprogramming languages required, e.g.,Python, R, Matlab, C++.

•Experiencewith Unix/Linux environments required (including shell scripting).

•Experience with large-scale data analysis, algorithm development,and statisticsrequired;work with next-generation sequencing, single cell RNA-sequencing, GWAS, or other -omicsdata preferred.

For details click here


Postdoc in Systems Immunology

The Kastenmüller lab focuses on cell-cell interactions, cellular localization and migration between and within tissues during homeostasis, infection and immunotherapy as well as the development of new animal models. To address these topics, we combine classical immunological assays like multicolour flow cytometry with cutting edge microscopy including 2-photon imaging of live animals, confocal analysis of tissue sections and whole mount preparations. The Institute is engaged in multiple collaborations with Max-Planck Institutes, other departments at the University of Würzburg, as well as with other leading national and international research groups.

Requirements:

  • PhD in life science
  • Sound knowledge and strong interest in immunology, cell biology or biochemistry
  • Experience with conditional knock out mice and animal handling
  • Fluent speaking and writing skills in English (German is not required)
  • Motivation, reliability and dedication to work in an academic research lab are a must

Full applications with code No. 2019/SI 05 should be sent via mail to systemimmunologie@uni-wuerzburg.de in a single PDF file until 31.10.2019.

For details click here


Posted on September  20, 2019

Postdoctoral Scientist: Microbiome Computational Biology

The Hudson Institute is a premier Australian discovery and translation medical research institute. By unravelling the biology underlying disease the Institute is using this information for transformative and innovative solutions to major health problems. The Hudson Institute is a partner of the Monash Health Translation Precinct (MHTP) along with Monash University and Monash Health.

The opportunity exists to join the Microbiota and Systems Biology Laboratory as a Postdoctoral Scientist. This role will focus on developing and applying cutting-edge microbiome computational analysis approaches to complement existing bacterial culturing and genomics technologies within the laboratory. The position will involve investigation, analysis of large high-throughput metagenomics and transcriptomic research and clinical datasets and provide the opportunity for close interactions with laboratory based research scientists and clinical scientists.

Essential Skills

  • An PhD in Biology, Bioinformatics, Computational Biology or Computer Science
  • Demonstrated skills in Python and/or R programming
  • Expertise in Linux/Unix operating systems
  • Proven ability to work independently and manage multiple projects simultaneously
  • Excellent verbal and written communication skills
  • Strong attention to detail

Ideal Skills

  • Knowledge of bacterial genomics, metagenomics and transcriptomic analysis methods and algorithms
  • Demonstrated expertise in the analysis of next generation sequencing datasets
  • Experience in the analysis and interpretation of large datasets and delivering complex projects to completion.

For information, please contact: sam.forster@hudson.org.au

Applications: Please send a copy of your current CV and cover letter outlining your skills and experiences to HR@hudson.org.au by COB Wednesday 3 October 2019.

For details click here


Postdoc in genome-scale modeling of metabolism

The Division of Systems and Synthetic Biology, located in the Department of Biology and Biological Engineering at the Chalmers University of Technology, is one of the world leading research groups within the field of systems biology. The Division is composed of 7 labs and faculty, and each group leader is responsible for directing particular research themes within the realms of quantitative systems and synthetic biology. The research interests within the division range, from trying to understand fundamental metabolism, to highly applied research on the production of renewable energy, up to studying metabolic-related diseases such as cancer.

We are seeking a motivated, creative post-doctoral candidate interested in genome-scale modeling in the context of metabolism and protein expression. Your major responsibilities are to independently drive the research project forward in a criticial and effective manner, to organise and manage models and data to a high standard, to regularly communicate results to your colleagues, and to disseminate your main conclusions to the scientific community in the form of meetings, conferences and peer-reviewed articles. You should be able to apply critical and creative thinking on a regular basis.

Qualifications : The ideal candidate would have a PhD degree, not older than three years, in biotechnology, bioengineering, systems biology, computational biology, or bioinformatics. You should have experience with genome-scale metabolic modeling, constraint-based analysis e.g. flux balance analysis, omics data analysis, integration of omics data with constraint-based models. Previous work experience with proteome-constrained models would be an advantage. You are also expected to be somewhat accustomed to teaching, and to demonstrate a good potential for working in research and education.

Application deadline: 1 November 2019

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Posted on September  18, 2019

Postdoctoral fellowship in Microbiome Bioinformatics

One position is available as Postdoctoral fellow - a 3 year engagement –at Institute of Clinical Medicine, University Of Oslo – funded by a prestigious grant from the Research Council of Norway. We are seeking a skilled and ambitious co-worker to take on a challenging project funded by the Research Council of Norway (RCN), “Targeting the Gut-Heart axis”, which focuses on the role of gut microbial functions in heart failure and acute coronary syndromes. The research group CliMic (Clinical microbiology and Microbiota medicine) led by Associate professor Marius Trøseid, has over the past 6 years established a strong clinical microbiome research environment. In the present project, the use of large-scale metagenomics, metabolomics and proteomics, as well as integrated multi-level bioinformatics from unique clinical cohorts, including randomized controlled trials, will provide novel insights into microbial driving factors of cardiovascular disease, and hopefully pave the way for novel treatment opportunities. The candidate should have an ambition to form an independent research track, and will be offered opportunities to do so. The position will require advanced multi-level bioinformatics, which will be performed in collaboration with our collaborator, Professor Karsten Kristiansen, University of Copenhagen.

Qualification requirements:

  • Applicants must hold a relevant PhD
  • Experience with microbiome research is a prerequisite
  • Documented experience with relevant bioinformatic and statistical methods (including use of R) is a prerequisite
  • Documented experience with multi-level bioinformatics is an advantage

Søknadsfrist 20. oktober 2019

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Postdoctoral position in the Nephrology and Renal Transplantation Research Group

The research group of prof. dr. Maarten Naesens is a part of the Nephrology and Renal Transplantation Research Group. His research aspires to tackle important questions in the rejection mechanisms of the kidney transplants, by translating molecular data into clinically applicable knowledge. The research group has a Renal Transplantation Biobank, which assembles all clinical, histological and molecular (epigenetic, genetic, proteomic and transcriptomic) data of all adult renal transplant patients transplanted in UZ Leuven since March 2004. Human data are coupled with in vitro data and data from relevant animal models. The granularity of the database and sample collection, together with long-term follow-up of the patients, allows the evaluation of the major unanswered questions in the field.

Responsibilities

As a postdoc, you will perform bioinformatics approaches to get more insights in the rejection mechanisms after kidney transplantation. You will supervise and support PhD students and contribute to several research projects of the research group, have a collaborative spirit and liaise with collaborators, clinicians, lab technicians, biostatisticians, bioinformaticians, immunologists/biologists, but also technology transfer experts and industrial collaborators.

Profile

We are looking for a computational biologist who is highly motivated, well organized and dynamic with a high level of independence and creative thinking:

  • PhD in bioinformatics, computational biology, molecular biology or similar.
  • A broad bioinformatics experience with a good working knowledge of transcriptomics / genetics/ pathway biology / immunology and deep scientific expertise in a number of disciplines including omics technologies and data analysis, methodology for biomarker discovery. Practical skills (wet lab activities) in molecular/cellular biology/immunology are a plus.
  • Proficiency in appropriate programming languages and software (R, SAS, Python, IPA, Microsoft Office).

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

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Posted on September  16, 2019

Postdoc: Computational Cancer Epigenomics / Single-Cell Analysis / Machine Learning

We are looking for computational biologists at post-doctoral level who want to pursue ambitious research in cancer and developmental genomics. Our group (https://science.ccri.at/research/research-areas/integrative-analysis) at St. Anna Children’s Cancer Research Institute (CCRI) strives to understand cellular development in cancer. Our projects center around two core themes:

  • Integrative analysis of tumors / tumor models using multi-omics technologies (transcriptomics, epigenomics, proteomics). We extend our previous work on histiocytoses, and aim to dissect intra-tumor development in other solid tumors (neuroblastoma, sarcoma, lymphoma).
  • Using computational modelling to connect complex biomolecular data to interpretable biological mechanisms. To this end, we apply machine learning to large data collections and we implement interfaces that ease access to these methods for experimental scientists.

As a postdoc, you will:

  • Join a recently established, small, and highly cooperative team, dedicated to support your personal and professional development.
  • Take charge of multiple projects within both themes described above. You bring in your own ideas and expertise to make the projects your own.
  • Analyze multi-omics data, including single-cell RNA-seq and ATAC-seq, ChIP-seq, RRBS/WGBS, and quantitative proteomics from pediatric solid tumors (blastomas, sarcomas, and histiocytoses).
  • Write code to scrape public data (GEO, TCGA, GTEx, etc.), train conventional or deep machine learning models, and apply them to your single-cell data.

Your qualifications:

    • PhD in a relevant subject (bioinformatics, genomics, molecular biology, cancer, etc.)
    • At least one first-author publication in a reputable journal.
    • Essential: Good programming skills (R or Python); good understanding of statistics.
      Desirable: Comfortable working in a remote Unix computing environment.
    • Essential: Extensive experience with multi-omics data analysis (e.g., RNA-seq, ATAC-seq).
    • Desirable: Experience with single-cell technologies.
    • Essential: Experience with commonly used machine learning frameworks.
      Desirable: Proficiency with deep learning methods.

All applications received before November 4th, 2019, will be considered.

For details click here


Postdoctoral Fellow in Computational Biophysics of Allostery

The lab of Igor Berezovsky at the Bioinformatics Institute is looking for highly motivated postdoctoral researcher in Computational Biophysics/Bioinformatics. The project is a continuation of the group's innovative work in the field of protein allosteric regulation (PLOS Comp Biol 12, e1004678 (2016), Curr Opin Struct Biol 37, 1 (2016), Bioinformatics 33, 3996 (2017), PLOS Comp Biol 14, e1006228 (2018), Nucl Acids Res 47, D265 (2019), Curr Opin Struct Biol 56, 18 (2019), Structure 27, 866 (2019)). It includes a work on the molecular model of allosteric regulation with the focus on inducing required allosteric signaling, exploring and tuning effects of the ligand-binding, and developing in silico approaches for the design of allosteric drugs. Collaboration with experimental groups on the validation of computational predictions will also be continued (Biochemistry 56, 228 (2017)).

The candidate should have a strong background in physics and mathematics, biophysics, bioinformatics and computational biology, structural biology, or computational sciences. Previous experience in physics, computer science, bioinformatics or applied statistics will be a plus. The candidate should also possess strong quantitative skills and be highly proficient in at least one major programming language, including Python or C/C++.

Applications containing the following should be sent by e-mail to Group Leader Igor N. Berezovsky:

For details click here


Posted on September  13, 2019

Computational Biologist (Systems Immunology)

The Ucar laboratory at The Jackson Laboratory for Genomic Medicine in Farmington, CT is seeking outstanding individuals to join our team to work at the intersection of Computational Biology and Immunology to perform analyses and develop methods to drive forward our understanding of how immune system and immune responses are changing with age in human and mice. For this, we generate state-of-the-art genomics data (ATAC-seq, CITE-seq) from primary human cells and develop computational methods to analyze and integrate these data.

You will work closely with an interdisciplinary team of scientists including clinical and immunologist collaborators as we continue to build systems immunology pipelines and use them in exciting and novel ways. Your work will focus on age and sex-related variation in the immune system and in immune responses.

Responsibilities

  • Develop new methods to analyze and interpret unpublished Next Generation Sequencing (NGS) data from human/mice immune cells.
  • Use novel and existing methods to analyze immune-related datasets.
  • Clearly and concisely present data verbally and in written forms.
  • Work with lab members and external collaborators. Provide expertise and input when needed.

Qualifications

  • BS or MS degree in Bioinformatics or relevent biological sciences degree. Incumbents who have not achieved Masters degree may compensate for lack of a degree with  at least five years of professional bioinformatics work experience.  Works under close supervision.
  • Must have a strong experience and interest in biology and the immune system
  • Must be a strategic thinker, who is highly motivated, action-driven and can get the job done.
  • Must be collaborative, proactive and flexible in changing direction and methods when needed
  • Must have experience programming (R, Python or similar) can take an idea and implement it in code.

Job ID 2019-26736

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Postdoctoral Fellow - Bioinformatician

According to the National Institute of Health (NIH) and the National Science Foundation (NSF), a postdoc is an individual who has received a doctoral degree (or equivalent) and is engaged in a temporary and defined period of mentored advanced research training to enhance the professional skills and research independence needed to pursue his or her chosen career path. In addition, according to the National Postdoc Association (NPA), Postdoctoral appointees can pursue basic, clinical or translational projects so long as their primary effort is devoted toward their own scholarship. Postdocs are essential to the scholarly mission of the mentor and host institution, and thus are expected to have the freedom to publish the results of their scholarship.

Characteristics of a postdoctoral appointment: 

It is expected that postdocs at MCW, with the assistance of their supervisor, will:

  • Transition to career independence through the development of professional skills that enable the postdoc to actively pursue a career of his/her own choosing.
  • Be supervised by at least one senior scholar who actively promotes the postdoc's professional development.
  • Establish an individual development plan (IDP) that incorporates equally the postdoc's career and training goals and the mentor's research goals.
  • Pursue basic, clinical, or translational projects so long as effort is focused primarily on research.

Primary Functions 

  • Understand genetic and biologic principles to guide the analysis and interpretation of NGS data. Independently provides troubleshooting for data generation and processing. Implements triaging and generates reports.

  • Participate in discovery projects.
  • Coordinate research study activities; lead and manage projects.
  • Develops, implements and refines informatics workflows and tools for analyzing and visualizing NGS data. Emphasis on visual and quantitative integration of multiple NGS modalities (i.e. RNA-Sen and ChIP-Seq).

Requisition ID #: 25824

For details click here


Posted on September  11, 2019

Postdoc­toral Re­searcher, Mo­lecu­lar and In­teg­rat­ive Bios­ciences Research Pro­gramme

The University of Helsinki is the largest university in Finland, hosting an international academic community of 40,000 students, researchers and staff members. University of Helsinki is also the most important provider of research infrastructures in Finland. Molecular and Integrative Biosciences Research Programme in the University of Helsinki is an interdisciplinary research unit for the studies of the molecular and mechanistic basis of life. We are unifying areas of experimental biosciences, including Biochemistry, Genetics, Structural Biology, Cell and Developmental Biology, Neuroscience and Physiology.

We are looking for ambitious and enthusiastic researchers interested in developmental neuroscience, neurological disease, computational modelling or bioinformatics, to work on an interdisciplinary project that aims to characterize the developmental mechanisms leading to the differentiation of cell types underlying mood and motivated behaviors. We will use high-throughput transcriptome and genome profiling methods and mouse transgenesis in order to look at transcriptional regulators and regulatory interactions at the neuronal fate decisions and during cell differentiation. The position is available immediately. The postdoc position is funded by the Academy of Finland grant and is available for 3 years, with a possibility of extension.

Postdoctoral candidates should possess a PhD degree in a relevant field. Prior experience with transcriptomics or genomics, genome-wide data analysis, or in computational modelling based on biological data is an advantage. Desired skills or interests: high-throughput genomics or transcriptomics data collection and analysis, including single-cell transcriptomics and genomics; molecular genetics methods, cell sorting, cell culture (primary cells). The candidate should also have good communication and presentation skills. The working language will be English.

Due date 21.10.2019 23:59 EEST

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Bioinformatician or Scientific Programmer at the Biomedical Sequencing Facility

The Biomedical Sequencing Facility is Austria’s leading technology platform and service provider for genomics in biomedicine – and one of the country’s largest producers of scientific ‘big data’. It is located at the CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences, in close collaboration with the Medical University of Vienna, the Ludwig Boltzmann Institute for Rare and Undiagnosed Diseases, and the St. Anna Children’s Cancer Research Center.

To keep up with rapid growth, we are searching a highly motivated Bioinformatician or Scientific Programmer (m/f/x) who wants to contribute to the booming field of personalized and digital medicine. The successful candidate will process and analyze complex biomedical data using the dedicated high-performance computing cluster available at CeMM, the Vienna Scientific Cluster (a TOP500 supercomputer), and cloud-computing infrastructure. In this position you will contribute to collaborative research, software development, and biomedical applications of genome sequencing technology. At CeMM, we take career development of our staff seriously.

Relevant Qualifications

  • Bachelor, Master, and/or PhD degree in bioinformatics, computer science, physics, genome biology, or another quantitative field
  • Proactive mindset, getting-things-done attitude (start-up company experience/mindset is a plus)
  • Strong programming skills (any language) and experience working with large volumes of data
  • A high degree of accuracy, reliability, organization skills, and a commitment to high-quality service provision
  • A formal education in software engineering and/or work experience as a software developer is a plus (but not mandatory)
  • Prior experience working with biological or medical data is also a plus (but not mandatory)
  • Friendly, collaborative mindset, ability to multi-task and to work effectively in an international environment
  • Written and oral communication skills in English
  • Motivation to work in one of the fastest-moving and future-oriented areas of biomedicine

Any application received by 18 October 2019 will be considered.

For details click here


Posted on September  09, 2019

Postdoctoral Scientists – Quantitative Biology/Bioinformatics

Two Postdoctoral scientists positions in Quantitative Biology are available in the laboratory of Dr. Ebrahimi. The qualified candidates will be working on projects related to viral/cancer immunity and evolution. The overall aims of the projects are to develop and apply multi-omic approaches to mine and deconvolute complex datasets including genomic, transcriptomic, and proteomic data from viruses, hosts, and tumors to: a) discover population-specific virus-host interaction mechanisms and identify underlying genetic and evolutionary sources; b) delineate gene expression profiles in cancer and investigate their association with germline/somatic mutations, viral status, and other clinical data.

EDUCATION/EXPERIENCE/SKILLS: Required: Ph.D. in a quantitative science discipline such as bioinformatics, computer science, mathematics, statistics, physics, or engineering. Skills in working with large datasets and developing tools and algorithms for analysis of large datasets. Coding in one or more platforms, e.g. Python, R, Matlab. Passion for learning quantitative biology. Preferred: Ph.D. in quantitative biology or bioinformatics. Experience in analyzing RNAseq, GWAS, Hi-C and other large biological datasets. Familiarity with databases such as UCSC Genome Browser, 1000Genomes, TCGA, and ICGC. Experience in using standard bioinformatics packages such as Samtools, Cufflinks, Tophat. Knowledge of statistics. Knowledge of evolutionary biology, and viral/cancer immunity.

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ERC-funded postdoctoral researcher in bioinformatics – single-cell immune transcriptomics and epigenomics

The Center for Infectious Medicine, the Department of Medicine, Huddinge The Department of Medicine at Huddinge comprises of seven units, three research centers, and a total of around 70 independent research groups. Our ambition is to be a leading department within medical research and education. At the Center for Infectious Medicine (CIM) (http://www.ki.se/cim) research focuses on studies of the human immune system. The vision is to be a world leading translational research center within immunology. Description of research group and project We are looking for an ambitious postdoc with solid genome-wide bioinformatics/computational biology skills to join our highly accomplished team of immunologists in a project (GUT-SEQ) funded by the European Research Council (ERC). We offer a stimulating environment in a rapidly moving research frontier. The postdoc will be part of a cluster of other bioinformaticians working on similar topics.

Entry requirements The candidate must hold a PhD equivalent to a Swedish doctoral degree in the field of genome-wide bioinformatics/computational biology. The candidate should have been trained in computer science/bioinformatics/computational biology during her/his bachelor-, master- or PhD degree. The candidate should fully master R, Phyton, Matlab/Octave, bash and C and have solid Unix/Linux experience and statistical knowledge. The candidate should have experience in working with scRNAseq from FASTQ to analyzed data, both with 10X, SS2 and other formats. The candidate should have a strong publication track-record. The candidate should be self-motivated, have good communications skills and a proven ability to interact effectively and work productively in an interdiciplinary team. Fluency in English is a requirement. Candidates should preferentially have some experience with single cell-based assessment of immunological responses such as flow cytometry. However, this is not a requirement.

Reference number 2-4373/2019

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

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Posted on September  06, 2019

Postdoctoral scientis genome analytics/genome bioinformatics

The University Medical Center Schleswig-Holstein is one of the largest university hospitals in Europe with more than 80 clinics and institutes. It offers outstanding medical treatment and excellence in research and education with nearly 13,000 employees, 2,600 patient beds and more than 100,000 hospitalized patients, 240,000 outpatient cases and in excess of 3,000 births a year. We provide top research at the interface of medicine, science and technology.

The Lübeck Interdisciplinary Platform for Genome Analytics (LIGA) is part of the Medical Faculty (“Sektion Medizin“) at the University of Lübeck. The overarching aim of LIGA is to improve our understanding of the genetic and epigenetic foundations of genetically complex human traits and diseases, in particular those related to aging.

Your role:

  • Develop and maintain bioinformatics workflows for the standardized processing of genomewide genotyping and sequencing data in a multi-core computer cluster environment
  • Perform statistical analysis of the resulting data with the phenotypes of interest (e.g. in the context of genome-wide/epigenome-wide association studies [GWAS/EWAS])
  • Interpret the results with respect to functional genetic/biological pathway data
  • Prepare the resulting research findings for publication in peer-reviewed journals

Your profile:

  • Degree in bioinformatics, biostatistics, or equivalent
  • Experience in the processing and analysis of large-scale genomics data using compute
  • clusters/high-performance computing
  • Familiarity with working in Unix/Linux environments (shell)
  • Strong programming skills (in particular: Python, R, Perl)
  • Experience with using git and snakemake
  • Strong communication skills in English both spoken and written and motivation to work in
    an interdisciplinary team

We are looking forward to your application. Please submit your application until 03.10.2019, indicating your earliest possible starting date as well as the reference number 20190570,

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Computational Scientist

Liberty BioSecurity, LLC is seeking a highly motivated and experienced computational scientist to be a part of our Expeditionary Science and Special Programs team in Worcester, Massachusetts. Primary responsibilities include the development of computational and statistical tools for the analysis of gene function and proteomics from next generation sequencing data of novel organisms. Activities support the microbial and pathogen identification, microbiome analysis, precision medicine applications, and regulatory testing for commercial, government and genetic intelligence applications. The successful candidate can work effectively in a highly dynamic and collaborative environment of researchers and data science sections.

Responsibilities:

•Develop analysis pipeline through the design and deployment of robust workflows usingcustom scripts to support the analysis of high-throughput data (cleaning, normalization, analysis, interpretation and visualization);
•Construct a survey methodology, program a statistical model for population growth, develop databases to compile vast amounts of information from activities (such as gene and protein expression profiling);
•Analyze internal and external -omic data sets to develop and discover novel biomarkers;
•Mine proprietary and publicly available genomic datasets to generate novel hypotheses or insights with commercial relevance;
•Maintain scientific advancement, emerging approaches and innovations in the NGS analysis fields.

Qualifications:

•PhD in Bioinformatics or similar discipline with expertise in Computational Biology, Immunology, Statistics, and Network Pharmacology/Systems Biology OR a MS in the aforementioned AND at least 3 years of experience in academic or industry setting is required
•Experience with high content data analysis, such RNAseq, and proteomic data.

•Experience with microbiome data and microbiome-related software (e.g. QIIME, Biobakery).
•Solid statistical training and experience in statistical modeling using Python and R.
•Experience with sequence analysis, alignment, and assembly (ex. MUSCLE, T-COFFEE, BLAST, ClustalW(2), HMMer, etc.).
•Have Python, PHP, PERL, C++, C#, Ruby, Javascript and Java programming experience.
•Experience with datastores/databases: MySQL, PostgreSQL, Hive, Hadoop.
•Experience with high performing computing or cloud computing, specifically AWS.
•US work authorization is required; no visa sponsorship available.

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Posted on September  04, 2019

Postdoctoral fellow in Human Microbiome research

Do you want to be an ERC-funded Postdoctoral fellow in human microbiome research? One position is available as Postdoctoral fellow (SKO1352) - a three year engagement – affiliated with The Norwegian PSC Research Center (NoPSC) at Institute of Clinical Medicine – funded by an ERC grant. NoPSC - a cooperation between University of Oslo (UiO) and Oslo University Hospital (OUH) - is dedicated to research on the chronic liver disease primary sclerosing cholangitis (PSC). Several features make PSC an intriguing model disease; more than 80% of the patients have inflammatory bowel disease, for which the link with the biliary inflammation is poorly known, and the disease may recur after liver transplantation. The center comprises three research groups covering all aspects of research related to primary sclerosing cholangitis, from basic genomic and experimental studies to clinical research and clinical trials. The research environment is world-leading for PSC and counts 20-25 engaged researchers from several countries and specialties.

We are now seeking a skilled and ambitious co-worker to take on a challenging project funded by a prestigious European Research Council (ERC) Starting Grant “StopAutoimmunity”, which focuses on gut microbial functions in recurrent PSC after liver transplantation. The research group, led by Dr. Johannes Hov, has over the last six years, established a strong clinical microbiome research environment. In the present project, the use of large-scale metagenomics and metabolomics will provide insights into a unique disease model to identify driving factors amenable to treatment. The candidate should have an ambition to form an independent research track, and will be offered opportunities to do so.

Qualification requirements:

  • Applicants must hold a relevant PhD
  • Experience with microbiome research is a prerequisite, and experience with metagenomic (shotgun) sequencing will be considered an additional advantage.
  • Documented experience with relevant bioinformatic and statistical methods (including R) or multi-omics is an advantage

Deadline 1st October 2019

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Senior Bioinformatics Scientist

Berkeley Lights, Inc. (BLI) is enabling precise cell by cell selection and manipulation to empower cell line development, antibody discovery and engineering, synthetic biology, and development of personalized cellular therapies. Founded in 2011, BLI is delivering breakthrough platforms and devices that fundamentally change the way biological processes are done. Our technology is revolutionizing how scientists and researchers study the interaction of cells and transform and accelerate biologics and cellular therapies.

Berkeley Lights is looking for an experienced Bioinformatics Scientist to join our venture-backed, commercial life science company. You’ll work with a diverse team of engineers and scientists to develop novel applications for our Beacon Platform, designed to automate complex biological workflows in BioPharma, including cell line development, antibody discovery, antibody engineering and gene editing and make immuno-oncology discoveries using our Beacon Platform.

Required Experience:

    • Ph.D. or Master's in Computer Science, Bioinformatics or related field with at least 2 years of relevant postdoc or industry experience.
    • Broad knowledge of NGS analysis tools and methods; enough experience to quickly and judiciously evaluate new methods and tools.
    • Extensive experience with developing commercial level pipelines, their underlying statistics and algorithms, and troubleshooting problems.
    • Software experience: should be comfortable in a Linux shell and with command line tools, and have good software development habits (source control, testing, code reviews).

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Posted on September  02, 2019

Post-Doctoral Associate in Computational Biology

The Department of Neurosurgery at the University of Minnesota invites applications for a Computational Biology / Bioinformatics post-doctoral associate position in the Center for Cranial Base Surgery and Brain Tumor Program. The laboratory of Dr. Andrew Venteicher, MD PhD, is seeking highly self-motivated candidates with a Ph.D. or equivalent degree, excellent scientific record, and a strong interest in developing new therapies for primary brain tumors.

The ideal candidate will have research experience using clinical specimens and genomic technologies, which may (but does not necessarily need) to include single cell genomics. The postdoctoral fellow will lead the computational analysis of rich genomics datasets to identify unique molecular signatures towards obtaining a deeper understanding of tumor heterogeneity, tumoral evolution, treatment resistance, and immune evasion. Comfort of basic molecular biology techniques such as immunohistochemistry and flow cytometry will be necessary for result validation. The candidate must be able to generate well-defined hypotheses and address them with appropriately designed computational and statistical methods using R and Matlab, and should be comfortable integrating data from the TCGA and other publically available repositories. The candidate must have demonstrated these skills in prior research endeavors and have experience presenting results in publications and presentations.

Qualifications

Required Qualifications:
• PhD in computational biology, bioinformatics, statistics, mathematics, applied mathematics or related computational/scientific field.
• Significant experience in computational biology as applied to genomics, proteomics, and other topics in molecular biology.
• Strong record of presenting research results through publications and conference abstracts.
• Highly self-motivated researcher.
• Excellent oral and written communication skills.
• Excellent interpersonal and organizational skills.
• Desire and ability to work collaboratively with others.

Preferred Qualifications:
• Experience working with clinical specimens.
• Experience in single cell approaches and next generation sequencing.

Job ID 332752
Job Code 9546

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Senior Bioinformatician

The Skok lab (http://skoklab.com) at the NYU School of Medicine is seeking a highly motivated, enthusiastic and creative individual to investigate the role of genetics, epigenetics and chromatin organization in cancer and/or apply machine learning to develop novel cancer diagnostics. The successful candidate will have the opportunity to work on various types of large genomics datasets and will interact closely with wet and dry Skok lab members. The successful candidate will also interact with a vibrant group of bioinformaticians in the Applied Bioinformatics Laboratories (http://www.tsirigos.com/)). This is a great opportunity to quickly acquire new skills, develop and publish new tools and methods, analyze challenging datasets and be a co-author in multiple studies.

Required skills

  • M.Sc. in Bioinformatics, System Biology, Computer Science or related field
  • Knowledge of biology and understanding of key and complex biological concepts (genes, pathways, cancer and/or stem cells)
  • Ability to work independently while collaborating and assisting the team in its common research goals
  • Attention to detail and ability to work on multiple projects is necessary
  • Experience in Unix/Linux systems including HPC environments

Responsibilities

  • Work closely with bench scientists to understand and help accomplish their research goals
  • Analyze various types of sequencing data analysis (e.g. RNA-seq, ChIP-seq, ATAC-seq, Hi-C-seq, bisulfite sequencing, whole-genome sequencing)
  • Perform robust data quality control and validation
  • Adapt genomic data analysis pipelines in a rapidly evolving research environment
  • Develop novel methods for multi-omics data analysis and integration

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Posted on August  30, 2019

Postdoctoral studies in bioinformatics to understand T cell biology (scholarship)

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.

Research at the division of Rheumatology is truly translational with excellent access to patient material and active clinicians, biologists and epidemiologists. The research spans a wide range of subjects, covering areas as diverse as clinical rheumatology, antibody biology, basic T cell biology, inflammatory mechanisms and more. The postdoctoral studies will be performed jointly in the labs of Associate professor and clinical dermatologist Liv Eidsmo, and Assistant Professor Carmen Gerlach (www.gerlachlab.com). Research in the Eidsmo lab focus on the role for resident T cells during homeostasis and immunopathology in the human skin. We have recently defined functional subsets of resident T cells and how these cells interact within the natural microenvironment during the inflammatory skin diseases psoriasis and vitiligo. Currently, the lab heads a mechanistic study of a global clinical trial, investigating if resident T cells can act as biomarkers of remission of psoriasis.

We are looking for a highly motivated, ambitious and talented person with excellent theoretical background and practical experience in bioinformatics, and genuine interest in T cell immunology. Prior experience in working with 10x-based sequencing datasets, ideally including feature barcoding will be highly valued. Excellent communication skills that allow for productive interactions with biologists lacking bioinformatics background will be key. This includes the willingness and ability to explain, justify and discuss analyses/model choices with other lab members and supervisors.

Reference number 2-4323/2019

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

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Postdoc or Application Specialist in Mass spectometry-based Proteomics

The Institute of Molecular Biology gGmbH (IMB)is a Centre of Excellence for Life Sciences funded by the Boehringer Ingelheim Foundation and located within the campus of the University of Mainz in Germany. IMB focuses on epigenetics, DNA repair and developmental biology and offers premium scientific core facilities (see www.imb-mainz.de/core-facilities). The Proteomics Core Facility, which is currently staffed with a technician and a bioinformatics specialist, is looking for an applicationspecialist on the postdoc level to join the team.

*You will*
• Independently maintain and operate LC-MS-systems
• Establish and optimize new MS-based methods
• Consult with and support scientific staff in proteomics experiments

*Required qualifications*
• PhD thesis in mass-spectrometry based proteomics
• Hands-on experience in maintenance of HPLC and MS (orbitrap platforms)
• Experience in quantitative proteomics workflows (e.g. dimethyl or TMT) preferred

*Desired qualifications*
• Commitment and interest in solving problems independently
• Communication and team spirit
• Interest in working in interdisciplinary teams
• Good knowledge of English (spoken and written)

Applications should be in English and sent as a single PDF fileincluding a cover letter, CV, certificates and at least two referencesquoting Ref. No. CFPD01 to personal@imb-mainz.de. Informal enquires should be addressed to Dr. Falk Butter (f.butter@imb.de). IMB is an equal opportunity employer.

Application Deadline:20th September 2019

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Posted on August  28, 2019

BIOINFORMATICS POSTDOCTORAL FELLOW

Michigan Medicine conducts background screening and pre-employment drug testing on job candidates upon acceptance of a contingent job offer and may use a third party administrator to conduct background screenings. Background screenings are performed in compliance with the Fair Credit Report Act. Pre-employment drug testing applies to all selected candidates, including new or additional faculty and staff appointments, as well as transfers from other U-M campuses.

A postdoctoral position is immediately available in the laboratory of Professor Simon Hogan, Ph.D. within the University of Michigan Mary H. Weiser Food Allergy Center (MHWFAC) and Department of Pathology for candidates with a Ph.D. in computational biology and/or bioinformatics and biostatistics. Broadly, our research aims to understand the role of hematopoietic and non-hematopoietic cell transcriptional and epigenetic mechanisms in regulation of food allergy and anaphylaxis.

The successful candidate will have a strong background in computational biology, bioinformatics or biostatistics and expertise in programming and high-throughput analysis of genomic and biological data. The position will involve utilizing computational and bioinformatics approaches to integrate large-scale ChIP-seq, RNA-seq, ATAC-seq, DNA methyl-seq and other large-scale epigenomic and chromatin analyses, including scRNA-seq and scATAC-seq data sets derived from human and mouse model systems to identify hematopoietic and non-hematopoietic cell transcriptional and epigenetic events in food allergy and anaphylaxis outcomes.

Responsibilities*

  • Computational analysis and integration of large genomic, transcriptomic and epigenetic datasets.
  • Access public genetic, epigenetic and transcriptomic large datasets and integrate and analyze these datasets with pre-existing laboratory generated datasets.
  • Build data analysis pipelines for scRNA-seq and ATAC-seq.
  • Manage large dataset storage in databases, lab wiki and lab UCSC browser.

Required Qualifications*

R

  • Must possess a Ph.D.
  • Excellent bioinformatic and programming skills (e.g. Perl, Python, C/C++, Java, R or Web applications).
  • Strong command of Linux/UNIX operating system.
  • Strong knowledge and skills in bioinformatics, statistics and next-generation sequencing data analysis.
  • Ability to use current bioinformatics tools and have an in-depth knowledge of advanced sequencing and array-based technologies.
  • Experience with Illumina NGS data analysis.

Job Opening ID 172203

Posting End Date:  9/13/2019

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Position: Postdoc in Bioinformatics / Computational Biology

The German Cancer Research Center is the largest biomedical research institution in Germany. With approximately 3,000 employees, we operate an extensive scientific program in the field of cancer research. The new Collaborative Research Centre “Understanding and Targeting Resistance in Glioblastoma” (UNITEGLIOBLASTOMA, SFB1389) is focused on decoding and combating resistance in glioblastoma, a serious and usually fatal brain tumor in children and adults. The goal of the research consortium is to understand the molecular mechanisms of resistance against current therapies and to develop new types of treatment. At the heart of the CRC is the “Core Collection”, for which uniform, integrated data sets from multiple omics analyses, preclinical models, imaging, and clinical data are being generated.

In UNITE, you will work with leading researchers in the field of neurooncology towards the goal of making glioblastoma treatable. Together with our collaboration partners you will exploit the unique data resources generated in UNITE to make discoveries that make a difference in glioblastoma research.

Your main responsibilities will be:

  • Analyze various large-scale datasets in close collaboration with clinicians and experimentalists
  • Design high-throughput experiments and develop data analysis strategies in close collaboration with the PIs of the various research projects
  • Develop, adapt and maintain analysis workflows for different data types
  • Develop and apply statistical and machine-learning techniques to integrate and mine high-throughput datasets

Requirements:

  • PhD in bioinformatics, computational biology, computer science or equivalent; alternatively, PhD in a life science discipline with demonstrated and significant experience in bioinformatics (including programming experience).
  • Demonstrated experience in analyzing large-scale high-throughput biomedical data (preferentially experience with NGS data)
  • Solid programming skills (preferentially Python and R)
  • Solid statistical background

Code number: 2019-0259

Application deadline: 10.09.2019

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