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    Opportunities: Multiple BIOINFORMATICS positions
    Submitted by Shailender Nagpal; posted on Wednesday, December 05, 2007

    1. BIOINFORMATICS SCIENTIST:
    To annotate finished chromosomes in fungal, bacterial, and viral genomes using bioinformatics and computational techniques and concepts. Will provide technical leadership and establish protocols and guidelines for manual genome annotation and comparative genomics techniques; design and implement scientific projects for large-scale annotation initiatives; analyze and publish experimental data as required; collaborate with the director of annotation and the annotation informatics team to develop practices and projects that support the manual annotation and analysis efforts of the sequencing/analysis program; perform automated and manual annotation and train other scientists in annotation projects; design projects for large-scale annotation initiatives and develop sound annotation protocols and guidelines; determine project objectives and timelines and select technical methods and tools; implement projects; analyze technical problems and propose and investigate solutions; modify work details or protocols to optimize results; examine experimental data and compile results; present and/or publish data; and perform related tasks as requested.

    REQUIREMENTS

    A Ph.D. or master's degree in biology or bioinformatics and at least two years of experience annotating genomes. Must demonstrate solid knowledge of sequence analysis and annotation approaches and concepts. Should also have working knowledge of UNIX and NT systems, SQL, and Perl. Experience with data mining and data integration techniques preferred. Excellent analytical skills, attention to detail, and ability to work effectively in a team environment required.
    1. BIOINFORMATICS ANALYST:
    to annotate finished chromosomes in mammalian, fungal, and bacterial genomes using bioinformatics and computational techniques and concepts. Will run and validate genome annotation pipeline; review existing annotations and propose improvements; test in-house bioinformatics tools and provide feedback to the software development team; perform manual annotation on mammalian, fungal, and bacterial genomes; interpret results from similarity searches and gene finding programs; ensure that annotation objectives are met as required by project or supervisor; use various computation analyses and biological interpretation of results to review existing annotations and propose improvements; test annotation and analysis tools developed in-house and provide feedback to the software development team; and perform related tasks as requested.

    REQUIREMENTS

    A master's degree in bioinformatics or related field. Advanced degree preferred. Must be familiar with or have knowledge of bioinformatics concepts, methods, and tools. Working knowledge of SQL, Oracle, and Perl or Jython required. Familiarity with various sources of genomic data, tools, and databases essential. Excellent analytical skills, attention to detail, and ability to work effectively in a team-oriented environment required.
    1. COMPUTATIONAL BIOLOGIST:
    To enhance the platform's image analysis and data mining efforts, mainly from large-scale, cell-based experiments. Will pursue independent research in image and/or data analysis; contribute to advancements in open-source software tools for cell image analysis (www.cellprofiler.org) and data exploration (www.cellvisualizer.org) and assist in applying them to significant questions in the life sciences; and work on scientific publications with an interdisciplinary team. May potentially provide scientific leadership to a small team of highly trained researchers, ensuring that team and project goals align with those of the platform. Research interests should be in one (or more) of the following areas: 1) design, implementation, and testing of novel biological image analysis algorithms; 2) design, implementation, and testing of novel large-scale data analysis, visualization, and exploration methods to the multiparametric data extracted from images; 3) design, implementation, and testing of information technology infrastructure; or 4) using existing software to set up and test image analysis solutions and assist biologists in applying them to particular biological applications (for this research area, programming skills are not absolutely required, but strong biology experience is required).

    REQUIREMENTS

    A Ph.D. in computer science or related field; strong background in one or more of the research areas pursued by the platform; knowledge of MATLAB, Java, MySQL or Oracle, cluster computing, and UNIX scripting languages; excellent analytical skills; enthusiasm for working with biologists and developing open-source bioinformatics tools; strong communication skills; ability to work effectively in a team environment; and experience/expertise in biology, image analysis, statistics, high content screening, microarray, or other large-scale data.

    HOW TO APPLY:
    Phone: 617.354.7215
    Fax: 617.354.7476
    amy.akillian[at]us.randstad.com

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