RESPONSIBILITIES

Organization: GN-Genomics

The DOE Joint Genome Institute (JGI) in Walnut Creek, CA (a division of the Lawrence Berkeley National Lab) has an exciting research opportunity available for a Computational Biologist Postdoctoral Researcher. Under supervision, will develop and apply computational analysis to interrogate genome, transcriptome and epigenomic regulation in model organisms pertinent for bio-energy and environment researches. Research projects will involve epigenome, transcriptome and chromatin structure characterization at whole genome scale through novel sequencing approaches. Focus includes: recognizing the nature of the biological and computational challenges, incorporating the broader knowledge on genome biology and genetics to generate hypothesis, designing innovative analysis approaches and integrating results to provide new biological insights and discoveries. Will also be expected to develop new projects with biological significance, summarize research outcomes into high profile publications, and present material at conferences and meetings. Will also be involved in the development and implementation of innovative analysis pipelines tailored for novel sequencing technologies and will work with various JGI computational groups to improve existing data analysis tools and implement new tools for general use. Position reports to the Sequencing Technology Group Lead.

Specific Job Duties:
Essential-
Computational Analysis

Develop and apply computational analysis and new algorithms to study genome, transcriptome and epigenomic regulation in bio-energy related research.
Participate in existing projects to explore epigenetic landscapes in regulation of algae biofuel production.
Develop innovative computation tools to reconstruct 3 dimensional chromatin regulation by sequencing data like ChIP-seq, RNA-seq, Methy-seq and Hi-C/ChIA-PET analysis.
Perform analysis and proficiently utilize assembled genomes, various alignment tools, visualization tools, and other genome interrogation and analysis software.
Familiar with the different types of data and approaches for genome assembly, transcriptome characterization and chromatin (epigenetic) interrogation.
Provide clear and concise professional summary and publications on data analysis and results.
Present technical and analytical status in weekly meetings.
Contribute to publications on experimental data generated by the new sequencing approaches.

Bioinformatics Tool Adaptation and Improvement

Adapt and improve tools to process sequencing data generated by various R&D library types and projects.
Participate in the design and development of new tools for the new R&D projects.
Refine and improve existing analytical tools.
Design and build new tools to analyze sequences of various research projects.
Troubleshoot complex system and data analysis problems and provide feedback on areas of improvement for existing tools.

Marginal-

Stay current with new sequencing technologies.
Provide feedback on the improvement of the library construction and sequencing procedures.
Interact with wetlab biologists to use the available data analysis tools.

REQUIREMENTS

Key Success Factors:
Essential-

Ph.D. in life sciences or computer science with some relevant research experience in both areas.
Strong background in bioinformatics, molecular biology and genomics.
Experience with:development of computational methods and algorithms, databases of genomic information, methods of analysis of biological sequence data.
Proficient in computer programming and experience using PC, Mac and/or UNIX operating systems.
Strong organizational and record keeping skills to record experiment results and analyze data.
Effective oral and written communication skills to present findings at group meetings and conferences and publish results.
Ability to interact with a variety of technical and scientific personnel including Research Associates, Scientists and Software Engineers.

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REQUIREMENTS

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