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    Opportunity: Systems Analyst/Programmer IV (#SC 25263) @ Fred Hutchinson Cancer Research Center -- Seattle, WA (US)
    Submitted by Alysha Duran; posted on Monday, May 06, 2013

    BACKGROUND

    The successful candidate will develop analytical pipelines for the analysis of high-throughput assay data including RNA-Seq, microarrays, and/or high-dimensional single-cell assays (e.g. CyTOF, Fluidigm) generated through large collaborative projects such as the HIV Vaccine Trials Network, the Collaboration for AIDS Vaccine Discovery and the Human Immunology Project Consortium. He/She will then use computational approaches to integrate results from one or more high-throughput assay types along with immunological and clinical endpoints to help predict how the immune system responds to a particular infection or vaccination.

    The successful applicant will integrate a dynamic team of (bio)-statisticians, bioinformaticians, computer scientists, and programmers lead by Dr. Raphael Gottardo at the Fred Hutchinson Cancer Research Center (FHCRC). The FHCRC provides a highly interactive and supportive environment for junior investigators to grow and develop their future career; it consistently ranks in the top places to work in academia, as surveyed by The Scientist.

    RESPONSIBILITIES

    The Bioinformatician will independently determine programmatic approaches to problems and develop computational tools and software programs that are computationally efficient, effective, and well documented for public release. He/She will apply these tools to large datasets to generate novel biological insights and will communicate results to collaborators via conference calls and lab meetings. He/She will also be expected to contribute to manuscript preparation and to give presentation at both national international meetings.

    May include some or all of the following:
    1. Analysis
    a. Communicate with collaborators to understand and develop requirements and specifications for analysis.
    b. Develop reproducible pipeline for data analysis of specific assay data (e.g., RNA-Seq)
    d. Integrate multiple data types using system approaches for generating novel biological insights
    e. Write detailed reports to be used to disseminate results to collaborators and prepare manuscripts
    1. Data management and high performance computing
    a. Implement creative solutions for large volume data management challenges (e.g. databases)
    b. Create reusable high performance computing solutions for processing large data sets (e.g. write specific parallel code or scripts to send multiple jobs to a queue)

    REQUIREMENTS

    • Because the applicants will be expected to 1) develop novel computational algorithms for processing large datasets, 2) implement creative solutions for large volume data management challenges, 3) create high performance computing solutions for processing large data sets, an MS degree (or higher) in computer science, bioinformatics, statistics, biostatistics or related field is required.
    • Proficient in R, Bioconductor and C/C++ a must
    • Familiarity with bioinformatics workflows
    • Familiarity with high performance computing and computing clusters
    • Some experience with relational databases, database schema design, SQL, postgress, and/or netCDF / HDF5 file formats
    • Experience with version control tools (preferably git), a plus
    • Knowledge of JavaScript including D3.js, extJS or jquery or similar, a plus
    • Must be organized and detail-oriented, with good oral and written communication skills

    LOCALE

    Seattle, WA

    COMPENSATION

    Salary DOE + Excellent Benefits

    HOW TO APPLY

    To apply for this position, please visit www.fredhutch.org/careers and reference job ID 25263. Please copy and paste your resume and cover letter in the text box when prompted.

    DEADLINE

    Open until filled.

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