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    Opportunity: Senior Research Analyst in Epigenomics and Transcriptomics @ UC San Diego -- San Diego, CA (US)
    Submitted by Olivier Harismendy; posted on Sunday, April 28, 2013


    The UCSD Institute for Genome Medicine (IGM) is a center of excellence for organizing the multi-disciplinary resources necessary to effectively translate the discoveries of genetic and genomic research from "bench to bedside". Under the leadership of Kelly A. Frazer PhD, the IGM aims to link clinical and genomic information to facilitate personalized health care. By combining UCSD's expertise in Genetics, Epigenetics, Disease Biology and Clinical Practice with its strengths in Systems Biology, Computer Science, and Bioinformatics, the IGM is uniquely positioned to support all activities along the continuum of genomic medicine.


    The Institute for Genomic Medicine at the University of California, San Diego is searching for a Senior Research Analyst to analyze epigenomic and transcriptomic datasets. This position will work closely with Faculty to design and analyze large-scale RNA-Seq datasets, microarray data, ChIP-Seq and DNA methylation experiments addressing a variety of questions concerning human diseases and basic biological questions. The position will also work closely with the Director of the Biomedical Genomics laboratory (BIOGEM), who will oversee data generation and quality analysis. The position will report into the Director of the Computational and Bioinformatics group and will work closely with this individual and Faculty across the UCSD School of Medicine to jointly oversee and educate postdoctoral fellows in computational and bioinformatics sciences.

    The candidate should be able to adapt to rapidly changing workloads and priorities, as well as have excellent time management and strong demonstrated organizational and multi-tasking skills. Other desirable skills include: understanding of molecular biology and human genetics / genomics, experience performing quantitative analyses on large genomic datasets, strong command of statistics and probability, 3+ years programming experience with both compiled and interpreted languages, experience and comfort working in a Linux/Unix environment, experience with gene annotation databases and genome-scale sequence manipulation,strong organization and attention to detail, effective communication, and a "team player" attitude.

    I. education and training
    A. Work closely with Faculty and the Director of the Computational and Bioinformatics group to:
    1) Identify and hire a team of postdoctoral fellows
    2) Oversee and educate team of postdoctoral fellows in computational and bioinformatics sciences.
    B. Establish workshops to train staff and investigators in best practices of assessing quality and performing analysis of epigenomic and transcriptomic datasets.

    II. Data Management and Analysis
    A. Review and understand study design and scientific context.
    Design analyses to assess quality, consistency, and integrity of data with input from staff and investigators.
    B. Formalize scientific questions into appropriate hypotheses or descriptive measures.
    C. Develop appropriate analytic plans to assess quality, consistency and integrity of data and to test research hypotheses.
    D. Identify appropriate statistical or bioinformatic approaches, utilizing both traditional and modern methods. Adapt and further develop existing analytic methodology as necessary.
    E. Perform programming to tailor existing packages to analytic needs or to implement new methods.
    F. Create and document data analysis files and implement data analysis plans, using both novel and existing software tools.
    G. Perform statistical analysis using standardized software packages and tabulate results for investigators.
    H. Identify inconsistencies or problems with statistical results.
    I. Independently recognize irregularities and invalid results with research data.
    J. Draft summaries of statistical analyses and present findings at meetings.


    • PhD in Bioinformatics, Computer Science, Mathematics, or related discipline / experience.
    • Ability to work closely with Faculty with molecular biology backgrounds to plan and direct analysis of follow-on experiments.
    • Understanding of molecular biology and human genetics / genomics.
    • Experience performing quantitative analyses on large genomic datasets.
    • Strong command of statistics and probability, and their application to quantitative analyses.
    • 3+ years programming experience with both compiled and interpreted languages.
    • Experience and comfort working in a Linux/Unix environment.
    • Experience with gene annotation databases and genome-scale sequence manipulation
    • Excellent time management and strong demonstrated organizational and multi-tasking skills including establish priorities, meet multiple and frequently changing deadlines with flexibility, process a high volume of work while under pressure, and maintain a high level of accuracy.
    • Demonstrated ability to work independently, take ownership of work performance, follow through on assignments, and anticipate, identify, and analyze situations and independently seek solutions or recommend course of action as appropriate.
    • Demonstrated ability to communicate clearly in person, by telephone, and in writing.
    • Excellent interpersonal skills including tact, diplomacy and flexibility with the ability to work in a team framework in conjunction with principles of community with staff, faculty and students. Participate in group discussions regarding research projects.
    • Demonstrated ability to provide work direction and delegate tasks to others. Ability to work with a variety of individuals including faculty, staff, and students in a bioengineering setting.
    • Willingness and demonstrated ability to meet established standards for dependability and attendance.


    Full Time Position


    La Jolla, California


    Based on experience


    Email CV, cover letter, name and contact information of three references to Dr Kelly Frazer: kafrazer[at]


    Until Filled

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