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    Opportunity: Bioinformatics Scientist (Cancer Research) (#44665) @ SRA International -- Bethesda, MD (US)
    Submitted by John M. Greene, Ph.D.; posted on Thursday, November 21, 2013



    SRA is seeking a Bioinformatics Scientist to join our program in support of The Cancer Genome Atlas (TCGA). This role requires strong verbal and written communication to understand the client's bioinformatics requirements and to translate those to our software developers insuring fluent communication between both groups. You will also be writing scripts and code to develop software used in maintaining and quality checking large genomic datasets. This is an industrial bioinformatics position, not a research bioinformatics position. On this program, SRA provides bioinformatics and software development support to the Data Coordinating Center (DCC). The DCC accepts, validates, coordinates and publically distributes genomic and clinical data generated by the analysis centers of the TCGA, for every cancer type and enrollee. The research of TCGA project depends critically on DCC data management and data access tools. This role requires strong personal initiative, organization, teamwork, the ability to build consensus in the scientific community (data providers and users), and time management skills. You will be working within a large program team, which includes 4 other bioinformatics scientists, and communicating directly with scientists in the broader community involved in TCGA data acquisition and analysis. Position is for full time employment with SRA and will be based at our client's office in Rockville, MD.


    Key responsibilities include:
    • Identify and specify meaningful workflows for receipt, quality control and distribution of clinical and genomic data through understanding the data and driving towards broad consensus in the data submitting and data using community
    • Define and document software specifications and work with software engineers to implement those specifications in a phased manner, knowing that other demands on engineering force incremental but functional release of features.
    • Interact with PhD level data submitters and data users to describe how and what the data is and how it can be ingested and distributed through the TCGA data coordinating center.
    • Interact with data portal users through ticketing system to provide Tier 3 support
    • Attend teleconferences with scientific disease working groups as a DCC representative; and attend ad hoc and regular teleconferences with submitting center personnel to gather and develop data format and validation requirements and expectations
    • Create wiki documents that describe software specifications, standard operating procedures, client-facing help and information, and subproject planning
    • Interact directly with members of the software engineering team to guide development into specifications and requirements
    • Prioritize and consider tasks from both scientific and business standpoints
    • Dig deeply into problems independently and deliver not only complex but also routine deliverables with high quality and on time
    • Generate excellent ideas and shepherd those ideas to fruition by building trust and enthusiasm
    Write reusable code / scripts using Perl or the Unix shell; which may be provided to other data users or data submitters in the external bioinformatics community for interacting with the DCC.
    • Investigate data quality / inconsistencies by processing data files with Unix shell scripts or other scripting languages you have written.
    • Work within a Unix command line environment


    • Fluency in at least one scripting language (Perl and/or Unix shell preferred)
    • Experience working in and/or understanding of basic Unix command line environments
    • Industry experience (commercial)
    • MS level degree and 6+ years experience (or equivalent combination of education and experience). Experience should include biology /computational biology and writing software for the purpose of analyzing large datasets, such as genomic data.
    • Experience working with large teams


    • Experience in developing or maintaining software for public release (open source or commercial)
    • Experience in team software development (open source or commercial)
    • Java experience


    Full Time Employment with SRA. US Citizen, Greencard or visa sponsorship will be considered.


    Bethesda, Maryland, USA




    Please submit resumes directly online via to job #44665, or by clicking on this link -[...]665BR


    Position is available for someone to start asap. We will be receiving resumes and interviewing until we find the right person.

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