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Specialist Computational Biology in Translational
3 months ago
**Application Window**:
**Open date**:May 1, 2024
**Next review date**: Thursday, May 16, 2024 at 11:59pm (Pacific Time)
**Final date**:Saturday, Nov 1, 2025 at 11:59pm (Pacific Time)
Applications will continue to be accepted until this date, but those received after the review date will only be considered if the position has not yet been filled.
**Position description**:
**Specialist Computational Biology in translational breast cancer research**
Additional roles may include data management of I-SPY2 data, including maintenance of data structures and manifests in the Cancer Center C4 high-performance environment; user administration of I-SPY2 Cancer Center C4 storage and compute servers in collaboration with C4 bioinformatics core; and data transfer to Amazon S3 storage server, or similar systems, in collaboration with Quantum Leap Healthcare Collaborative (QLHC administrators.
- Next-generation DNA sequencing pre-processing pipelines (including alignment and mutation calling and QC)
- Clonality analysis of serial samples, including phylogenetic trees
- Copy number analysis based on sequencing data
- Functional significance analysis of somatic alterations
- R-coding in biological and clinical context
- Linux, command line, bash script, SAM tools usage
- Experience with high-performance computing resources such as Cloud, or similar systems, and running pre
- and post-processing workflows in cluster environment
- Relaying information on next-generation pipelines and resulting data to other users
Preferred experiences include:
- A MSc in Bioinformatics or Computational Biology or related program
- Knowledge of Breast Cancer etiology and progression; drug resistance
- Working with RNA-sequencing data (including pre-processing)
- Familiar working with GATK, Picard, Mutect2, VarScan, FACETS and optional working with Slurm Workload Manager, AmazonS3
- Integrating DNA and RNA sequencing data for calling of expressed mutations
- Allelic frequency estimation
- Population structure inference modeling
- Integrating somatic alterations in a pathway-based approach
See Table 24B for the salary range for this position. A reasonable estimate for this position is $59,200-$82,100.
**Application Requirements**:
**Document requirements**Curriculum Vitae - CV must clearly list current and/or pending qualifications (e.g. board eligibility/certification, medical licensure, etc.).Cover LetterStatement of ResearchMisc / Additional (Optional)
**Reference requirements**
- 2 required (contact information only)
**About UC San Francisco**:
As a University employee, you will be required to comply with all applicable University policies and/or collective bargaining agreements, as may be amended from time to time. Federal, state, or local government directives may impose additional requirements.
**Job location**:
San Francisco, CA
