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    BACKGROUND

    CosmosID is an innovative bioinformatics company located in Rockville, MD. Our primary mission is to develop robust software solutions utilizing Next Generation Sequencing (NGS) for pathogen identification and microbiome characterization. Currently we are recruiting a Bioinformatics Scientist. Please visit our website for further details (www.cosmosid.com).

    RESPONSIBILITIES

    Primary responsibilities will be to implement, design, develop, and innovate current and emerging computational biology and bioinformatics algorithms to analyze, interpret, visualize, and illustrate original scientific microbiome data.

    REQUIREMENTS

    Skills:
    • Must possess clear communication skills.
    • Strong background in statistics and mathematics.
    • Must be able to work well within a small group.
    • Strong programming/scripting and data visualization skills.
    • Solid Unix/Linux foundation.
    • Ability and initiative to learn and build new pipelines/tools on your own.
    • Strong work ethic.
    Experience:
    • Ph.D. (or other degree with equivalent experience) in computational biology, bioinformatics, computer science, microbial ecology or related life, physical, or computational sciences.
    • Genomic data visualization.
    • Demonstrated proficiency in statistical analysis using scripting analytical language (R, Python, etc.).
    • Familiarity with common methods of NGS sequence analysis (DNA-Seq, RNA-Seq).
    • Strong experience developing tools in programming languages such as Perl, Python, C, C++, or Java.
    • Proficiency in the use of UNIX/Linux and its command-line environment, including scripting (shell, Perl, Python, Ruby, Tcl/Tk, etc.).

    PREFERENCES

    • Demonstrated proficiency in the analysis of large-scale metagenomics and/or microbiome data analysis and use of relevant open-source tools.
    • Strong familiarity with the use of open-source bioinformatics software, including applications employing ontologies, pathways, networks, and/or phylogenetics at both the individual gene and genomic scales.
    • Experience with AWS or other cloud environments and web services such as JSON.
    • Experience with project management.
    • Strong interpersonal, presentation, written, and oral communication skills to convey computational biology principles and concepts in a clear and precise manner.
    • Excellent troubleshooting and problem-solving skills, including the ability to learn new software quickly.
    • Experience working directly with clients and communicating clearly with them.
    • Bioinformatics experience in pipeline development, Next-Generation sequencing data management and analysis, or high-volume biological data management and analysis.
    • Familiar with publicly available bioinformatics tools, algorithms and databases.
    • Experience using version control systems.
    • Familiarity with a high-performance parallel computing environment and understanding of problems and bottlenecks associated with storage and management of genomic-scale data.
    • Familiarity with algorithms and algorithm development for bioinformatics, including composing, editing, and compiling open-source code.

    TERMS

    Position Type: Full-Time

    LOCALE

    Rockville, MD

    COMPENSATION

    Compensation is market competitive, and based on the experience and the expertise of the selected candidates.

    HOW TO APPLY

    Interested candidates are requested send their CV and cover letter to jobs[at]cosmosid.com

    POLICY

    Candidate should have a legal work permit to work in the US.

    BACKGROUND

    The Wellcome Trust Sanger Institute are seeking to recruit a Data Scientist who can facilitate the scientific work of the Jones group by leading the computational data analysis support for the team and their collaborators.

    The group, led by Phil Jones, studies pre-cancer, how mutant cells evolve into cancers in humans and model systems (www.sanger.ac.uk/scie[...]group). We are interested in how mutant clones compete with each other and interact with the cancer promoting environment during epithelial cancer evolution in order to guide new cancer prevention therapy. Our cross disciplinary approach exploits quantitative methods to link mutation with changes in cell dynamics (see links 1-3 below). Recent work includes developing a new deep sequencing technique to reveal a high density of clonal mutations in normal human skin, basis of skin stem cell cell fate and developing new models of oesophageal cancer. The group is a mixture of experimentalists and quantitative biologists. The post holder will be able to exploit extensive bioinformatics and statistical expertise within the Institute.

    Many of our experiments involve the generation of large quantities of genome and exome sequencing and RNAseq including single cell transcriptomics which require strong computational skills to create high quality mutation calls, carry out statistical analysis to interpret the effects of mutation in varied samples and experiments and develop bespoke solutions to data visualisation. Collaborating within the experimental team to integrate genomic analysis with other types of data to resolve the cellular and tissue effects of mutations within tissues is an important part of what we do.

    RESPONSIBILITIES

    The post-holder must be a good communicator and be able to understand the scientific background and technical detail of the team's projects, and be to be proficient at devising and implementing software solutions and statistical analysis. This role would suit somebody with previous experience of next-generation sequencing technologies and their application to clonal evolution, although experience with next-gen data is highly desirable it is not essential as training can be provided. The successful candidate will work in conjunction with other computational biologists in the group and with other teams at the WTSI.

    1) Martincorena I, Roshan A, Gerstung M, Ellis P, Van Loo P et al. Science 2015;348; 880-6. Tumor evolution. High burden and pervasive positive selection of somatic mutations in normal human skin. PUBMED: 25999502; DOI: 10.1126/science.aaa6806

    2) Roshan A, Murai K, Fowler J, Simons BD, Nikolaidou-Neokosmidou V and Jones PH. Human keratinocytes have two interconvertible modes of proliferation. Nature cell biology 2016;18;145-56. PUBMED: 26641719; DOI: 10.1038/ncb3282

    3) Frede J, Greulich P, Nagy T, Simons BD and Jones PH. A single dividing cell population with imbalanced fate drives oesophageal tumour growth. Nature cell biology 2016;18, 967-78. PUBMED: 27548914; DOI: 10.1038/ncb3400

    REQUIREMENTS

    • A PhD level degree related to biology/genetics/computer science/mathematics
    • Experience of bioinformatics and familiarity with genome data
    • Evidence of proficiency in a modern computer language such as Perl or Python
    • Strong UNIX/LINUX skills
    • Experience of researching/using/supporting external software packages
    • Ability to rapidly attain new technical skills and understanding of new technical concepts
    • A high level of communication skills to be able to elicit complex requirements from, and convey complex information to, group members with different levels of technical knowledge
    • Ability to quickly adapt to new problems and ideas
    • Ability to work unsupervised
    • Excellent problem-solving skills

    PREFERENCES

    • R programming experience
    • Experience of working with biological analysis pipelines on multi-node compute clusters
    • Experience in pathway analysis software
    • Proficient in statistical analysis of genome-wide datasets

    COMPENSATION

    Salary Range: £31,498 to £39,729, plus excellent benefits.

    Our Benefits include: Defined Contribution Pension Scheme, Group Income Protection, Healthcare scheme, Childcare Vouchers, Workplace Nursery and 25 days Annual Leave, increasing by one day per year up to a maximum of 30, plus Bank Holidays. We also have a gym, two cafes, dining facilities, and a free campus bus service. Our thriving Sports and Social Club provides many opportunities to meet with people working across the campus.

    ABOUT US

    The Sanger Institute is a charitably funded research centre focused on understanding the role of genetics in health and disease. We use state of the art large-scale genomic approaches to drive world-leading projects to uncover the basis of genetic and infectious disease. Our goal is to provide results that can be translated into diagnostics, treatments or therapies that reduce global health burdens. The Institute is located near Cambridge, UK on the stunning Wellcome Genome Campus. This growing and dynamic site is the British hub of genomic science. It hosts the European Bioinformatics Institute (EBI), Open Targets, a Biodata Innovation Centre and will soon host Genomics England Limited's 100,000 Genomes Sequencing Centre. The Campus is also home to Wellcome Genome Campus Connecting Science. Connecting Science inspires new thinking, sparks conversation and supports learning by drawing on the ground-breaking research taking place on the Campus. Its mission is to enable everyone to explore genomic science and its impact on research, health and society. To help researchers to develop their skills and networks, the Institute hosts a range of scientific seminars with internal and invited speakers, scientific group meetings and skills development workshops.

    HOW TO APPLY

    Clicking on the link jobs.sanger.ac.uk/wd/p[...]16217

    Please include a covering letter and CV with your application. If you have any informal queries please contact Phil Jones pj3[at]sanger.ac.uk.

    DEADLINE

    22nd June 2017 , however applications will be considered and reviewed on an on-going basis and therefore the post may be filled before the deadline.

    POLICY

    Wellcome Trust Sanger Institute welcomes applications from all candidates irrespective of age, disability, gender, gender identity, sexual orientation, race, religion or belief, or marital or civil partnership status. Please include a covering letter and CV with your application.

    BACKGROUND

    MeInBio is a newly established research training group at the University of Freiburg and the Max Planck Institute of Immunobiology and Epigenetics Freiburg. It aims at a dual education in bioinformatics and wet laboratory methods to explore the spatio-temporal dynamics of gene regulation using high-throughput and high-resolution methods. For further details concerning the positions, information on the individual research groups and the offered projects, as well as the application procedure please refer to
    www.anatomie2.uni-freiburg.de/en/g[...]x.htm

    We offer:
    • Exciting modern research projects in well equipped laboratories using state-of-the-art technologies (stem, cancer and prokaryotic cells, single cell and high-throughput sequencing, high-resolution imaging, bioinformatics)
    • Tandems between wet laboratory and bioinformatics groups with an at least three-month stay in the lab of the respective other field
    • Different model organisms for conceptual learning and scientific exchange
    • Professional and efficient supervision secured by a thesis advisory committee
    • Regular courses in bioinformatics and wet laboratory techniques
    • Additional "soft skills" courses and gatherings of all research training group members for scientific exchange

    REQUIREMENTS

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

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

    TERMS

    Positions are for three years, starting in September, 2017.

    LOCALE

    Freiburg, Germany

    COMPENSATION

    65% PhD positions (life sciences)
    100% PhD position (bioinformatics)
    100% Postdoc position

    HOW TO APPLY

    Only online applications through the web site www.anatomie2.uni-freiburg.de/en/g[...]x.htm will be considered.

    DEADLINE

    June, 8th, 2017

    Submitter

    EXCERPT

    In a significant advance in the study of mental ability, a team of European and American scientists announced on Monday that they had identified 52 genes linked to intelligence in nearly 80,000 people.
    Source: www.nytimes.com/2017[...].html

    BACKGROUND

    The Canadian Center for Computational Genomics (C3G) at McGill University provides bioinformatics analysis and high performance computing services for the life science research community. C3G develops customized and case-by-case bioinformatics solutions as well as an extensive suite of open-source software, including bioinformatics analysis pipelines (bitbucket.org/mugq[...]lines) used by multiple academic institutions, and many data access and analysis portals. We are seeking a Web Application Developer to engage in the development maintenance of a number of web applications, including the International Human Epigenome Consortium (IHEC) Data Portal (epigenomesportal.ca/ihec/), GenAP (genap.ca) and other online resources.

    Under the supervision of the Bioinformatics Manager, the Web Application Developer will implement and maintain client and server-side applications, extending the tools and technologies already in place using JavaScript, HTML, Python, MySQL, and so on. Short development cycles will involve small but frequent releases, and constant interactions with the bioinformatics platform team members.

    RESPONSIBILITIES

    • Design, build, test, deploy, monitor and maintain high-quality interactive web applications using Javascript, D3, HTML, and CSS
    • Iteratively write code to incorporate new concepts and test new designs
    • Focus on user experience, intuitive interfaces and interaction layers to create user-friendly web pages and applications
    • Ensure implementation is done using the best coding practices, including proper code commenting, unit testing, etc.
    • Develop server-side applications and scripts, such as data quality control pipelines
    • Contribute in the technological research and the prototyping
    • Make proper use of a revision control system such as BitBucket with Git
    • Setup and maintain automation tools for testing, continuous integration & delivery such as Selenium and Jenkins
    • Optimize code when needed while making use of good software practices
    • Make use of an issue tracking system such as Atlassian JIRA to document tasks, issues and bugs, and the resolution status of these
    • Ensure that all finished solutions work within a variety of browser types and screen settings along with the constraints set by development and design
    • Ensure that all Internet standards are met and that the company does not intentionally violate any standards or licenses that would place our domain in jeopardy

    REQUIREMENTS

    • Experience with Javascript in developing full-scale web applications is absolutely mandatory. Providing links to examples of web applications applicant has worked on is highly recommended.
    • Undergraduate degree in computer science, engineering or related field
    • Having an open mind towards new technologies, having at least basic knowledge of the various layers involved in web application development (full-stack)
    • Attention to detail, good communication and organizational skills and ability to work in a highly interactive group
    • Capable of getting multiple tasks assigned at once, and making sure that they all progress at a steady pace

    PREFERENCES

    • Experience with Javascript APIs and frameworks, for example jQuery, D3, ReactJS, AngularJS
    • Experience with relational databases (RDBMS), such as MySQL and Postgres
    • Experience with server-side scripting, such as Python, Perl, Bash
    • Experience with Python frameworks like Flask and Django
    • Experience with the Git version control system
    • Demonstrated sound intuition in making efficient and simple-to-use browser-based interactive tools and interfaces
    • Interest in the field of genetics and bioinformatics.
    • English and French (spoken and written)

    TERMS

    Contract renewable yearly.

    LOCALE

    McGill University, Montreal, Quebec, Canada

    HOW TO APPLY

    Please submit your application online at www.mcgill.ca/medh[...]y-now. Click on "APPLY NOW" and clearly indicate the reference number.

    DEADLINE

    June 2, 2017 at 5:00 PM

    POLICY

    McGill University is committed to equity in employment and diversity. It welcomes applications from indigenous peoples, visible minorities, ethnic minorities, persons with disabilities, women, persons of minority sexual orientations and gender identities, and others who may contribute to further diversification.

     

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