Cloud / Sequence Pipeline Developer(University of California – San Francisco), San Francisco, CA, US, 94101

Posted On: June 17th, 2017    Job Type: Pipeline Jobs    Job Location:
Job Summary JOB OVERVIEW The UCSF Psychiatry Bioinformatics Core (PsychCore) provides cloud-based pipelines for the analysis of large-scale genetic data from next-generation sequencing for use by the UCSF community. The applicant will help optimize existing pipelines and develop new pipelines in the Amazon Web Services (AWS) cloud-computing environment. In addition, he/she will collaborate with research and clinical staff to run these pipelines on novel data and develop tools to help to interpret the results of these analyses. They will require extensive experience with systems operations and the ability to think creatively in applying these skills to the cloud environment. Dr. Stephan Sanders, MD PhD ( is the Director of PsychCore. He has extensive experience in bioinformatics and genomic analysis, particularly gene discovery in Autism Spectrum Disorder. The successful applicant will join a highly motivated team of bioinformaticians including Programmer/Analysts and postdocs in the Sanders lab and collaborating labs. We are especially keen to hire an individual who is highly motivated and capable of both working in a team and independent problem solving. The candidate will also perform a variety of other related duties PSYCHIATRY The UCSF Department of Psychiatry is among the nation's foremost resources in the field of child, adolescent and adult mental health. Psychiatry faculty members are recognized for their leadership roles in state-of-the-art, comprehensive and compassionate patient care, pioneering research, excellence in training the next generation of leaders, advancing public policy to advance mental health, and commitment to diversity. ABOUT UCSF The University of California, San Francisco (UCSF) is a leading university dedicated to promoting health worldwide through advanced biomedical research, graduate-level education in the life sciences and health professions, and excellence in patient care. It is the only campus in the 10-campus UC system dedicated exclusively to the health sciences. Required Qualifications BS degree in Computer Science/Biological Sciences, or equivalent Prior experience with data management, storage, transfer, analysis using security best practices Proficient at shell scripting on GNU/Linux platforms and producing original logic to support systems administration Proficient at multiple programming languages, for example, two of: Python, Java, Perl, Bash, Scala, JavaScript, Matlab, R, C/C++ Prior systems administration experience of remote UNIX/Linux systems Prior experience with parallelized/distributed computing on high-performance computing clusters and/or Cloud servers Prior experience in system operations (sysops) or developer operations (devops) Interested in learning about genetics and next generation sequencing Proven ability to work within a team to accomplish specific goals at specified times Demonstrates excellent attendance and professionalism Attention to detail Strong organizational skills Excellent written and oral communication skills Ability to pick up new techniques quickly Outstanding job references NOTE: FINGERPRINTING AND BACKGROUND CHECK REQUIRED. EFFECTIVE MARCH 13, 2017, ALL FINAL CANDIDATE(S) FOR EMPLOYMENT ARE REQUIRED TO UNDERGO A BACKGROUND CHECK. Preferred Qualifications MS/PhD in Computer Science/Statistics/Biological Sciences, or equivalent Experience with AWS cloud computing Experience with HIPAA compliant systems or equivalent level of data security Experience with multiple programming paradigms, e.g. Object-oriented and Functional Experience developing software containers, e.g. Docker Experience with configuration management tools, e.g. Ansible, Chef, and/or Puppet Experience with distributed file systems e.g. Lustre or HDFS Familiarity with the Hadoop ecosystem e.g. MapReduce, Spark, Hive, HBase Background in biological data processing, especially in human genetics Proven record of excelling in a large team environment (15 plus individuals) but still possess an independent work ethic License/Certification n/a Position Type Full Time Percentage 100% Equal Employment Opportunity The University of California San Francisco is an Equal Opportunity/Affirmative Action Employer. All qualified applicants will receive consideration for employment without regard to race, color, religion, sex, sexual orientation, gender identity, national origin, age, protected veteran or disabled status, or genetic information. Submit to job Send to friend Save to cart

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