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    Opportunity: Software Developer, Medbook (#1204021) @ UC Santa Cruz -- Santa Cruz, CA (US)
    Submitted by Branwyn Wagman; posted on Friday, February 08, 2013


    The UCSC Center for Biomolecular Science & Engineering (CBSE, at UC Santa Cruz seeks an experienced and motivated software engineer to develop components for the first functioning prototype of the Medbook platform, a web-based application to connect clinical research results to genomic-based research results. This project supports the identification of biomarkers for castration-resistant prostate cancer as part of the SU2C Prostate Dream Team milestone. The successful candidate must be an experienced programmer, able to learn and integrate information quickly, able to rise to challenges, articulate, and have a strong commitment to quality and best engineering practices. The position requires independence, creativity, and self-motivation in a team environment.

    This position is a part of the CBSE cancer genomics group, a talented cross-disciplinary team that builds bioinformatics databases and software tools that host, visualize, and analyze cancer genomics data on the UCSC Cancer Genomics Browser ( The group is closely associated with the UCSC Center for Genomic Sciences, which develops and supports the UCSC Genome Browser ( The cancer browser facilitates an integrative, interactive, and versatile display and comprehensive analysis of cancer genomic and clinical data that helps cancer biologists and clinical oncologists translate molecular data from DNA, RNA, and other measurements into personalized cancer treatment. The browser makes it possible to identify genes, pathways, profiles, and other genomic characteristics that have been changed in tumors or are predictive for treatment response, disease prognosis, and other clinical phenotypes. Investigators interact with the browser to order, filter, aggregate, and display data according to data values, chromosomal coordinates, clinical features, and biological pathways.


    Under general supervision, the software developer works with other engineers to develop new analysis and data visualization capabilities and maintain the UCSC Cancer Genomics Browser. The incumbent builds data wrangling tools, contributes to the development of the data analysis pipeline, and transforms research prototype code to polished engineering components for the cancer genomics project. The position interacts with scientific collaborators and creates presentations and publications about technical aspects of the project.


    Qualifications include Bachelor's degree in computer science or equivalent education; extensive experience in web application programming (e.g., cgi) in a time-critical environment; expert knowledge of programming languages including Python, Java, C++; expert knowledge of SQL database applications and web architectures; extensive experience working in a UNIX or Linux environment; extensive experience facilitating visualization of large data sets via an interactive web interface; experience in application-level and server-level access control and data security; knowledge of bioinformatics methods and genomics tools, equivalent to that gained from MS-level studies.


    University of California, Santa Cruz


    Starting salary range: $57,500-$80,000/annually, commensurate with qualifications and experience


    For more information and to apply for job #1204021, visit[...]66191


    Initial application review is 2/21/2013


    UCSC strives to embrace diversity in all its forms; it strives to be an inclusive community that fosters an open, enlightened, and productive environment.

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