Job: Bioinformatics Programmer - Clinical Cancer Genomics Laboratory, UCSF
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2.3 years ago by
ccglucsf20 wrote:


UCSF is seeking a person to serve as Bioinformatics Programmer for the Clinical Cancer Genomics Laboratory (CCGL). In this role, this individual will be part of a team responsible for design, construction, and maintenance of a genomic analysis pipeline for clinical cancer samples that communicates with sequencing core services, laboratory information management systems and clinical reporting software.

Under the general direction of the Associate Director of Informatics for the CCGL, the Bioinformatics Programmer will design and develop data analysis pipelines to support analysis of massively parallel sequencing of cancer samples for patient care. New software developed will provide support for automating aspects of sample analysis and error reporting and integration with other clinical systems. Additional responsibilities will include supporting the development of target capture panels and test validation as well as quarterly data analysis to improve QC and support clinical annotation.


  • MS in bioinformatics or related field, or BS and 4 years relevant experience
  • Thorough knowledge of bioinformatics methods and data structures
  • Thorough knowledge of bioinformatics programming design, modification and implementation
  • Thorough knowledge of genomics and cancer biology
  • Experience with Illumina sequencing data, genetic variant calling, variant analysis, annotation, and filtering
  • Python, R, Unix/Linux OS and shell scripting, and associated libraries
  • Knowledge of statistics and ability to work with large genomics datasets
  • Communication skills to work with both technical and non-technical personnel in multiple fields of expertise and at various levels in the organization
  • Strong project management skills
  • Ability to communicate technical information in a clear and concise manner


The Department of Pathology at UCSF aims to achieve the highest standards in patient care, research and education. The Department provides diagnostic pathology services in a wide variety of subspecialties with highly trained subspecialists who are recognized nationally and internationally for their expertise. The Department’s research programs are diverse and interface with a wealth of basic and translational research programs that are a hallmark of UCSF.

The mission of the Clinical Cancer Genomics Laboratory (CCGL) at UCSF is to develop and validate genomic testing to support cancer clinical care and research. The CCGL provides the UCSF500 Cancer Gene Panel assay, a molecular test profiling DNA from tumor and normal tissue to identify mutations that may drive a patient’s cancer and aid in diagnosis and treatment.


Apply online at, requisition number 49707BR.

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