Bioinformatics Programmer III

UCSF Health, AG; San Francisco (CA); On-site; USD 120,000 - 180,000; Full time

Job summary

The Cardiovascular Genetics Center at University of California, San Francisco is seeking an experienced bioinformatician to facilitate research on inherited cardiovascular diseases and personalized genomic medicine.

You will design analysis pipelines for bulk and single-cell multiomics, ChIP- seq, CUT&RUN, and sequencing data, collaborating with investigators to translate discoveries into prevention and treatment strategies.

Qualifications

• Bachelor's degree or higher in biological or computational biology with relevant experience.
• 3+ years of work experience in bioinformatics or computational biology.
• Proficiency in Python or R for analysis and pipeline development.
• Experience with relational databases, web interfaces, and operating systems.
• Strong project management and collaboration skills.
• Publication record or demonstrated expertise in high-throughput sequencing analyses.

Responsibilities

• Design and implement analysis pipelines for multiomics and sequencing data.
• Analyze patient-derived and public genomic datasets to study cardiovascular disease.
• Develop computational tools and maintain infrastructure for large-scale studies.
• Collaborate with bench scientists and clinicians in a multidisciplinary environment.

Skills

Python

R

Bioinformatics programming

Relational databases

Web interfaces

Operating systems

Project management

Communication skills

Cloud computing

High-performance computing

RNA-seq analysis

ATAC-seq analysis

ChIP-seq analysis

Chromatin occupancy studies

Education

Bachelor's degree in biological sciences or related

PhD in Bioinformatics

Tools

Genomic databases

Statistical toolkits

Job description

Job Description

The Cardiovascular Genetics Center at University of California, San Francisco is seeking an experienced bioinfomatician to faciliate several lines of research that relate broadly to inherited forms of cardiovascular disease, regulation of gene expression in health and disease, and personalized genetic medicine. The incumbent will work closely with prinicpal investigators within the Genetic Center to design and implement analysis pipelines in several broad areas of computational biology including analysis of experimentally generated datasets in basic research, and analysis of patient-derived genomic data from UCSF patients as well as publicly available data repositories. The goal will be to make fundamental biological discoveries that can ultimately be translated to understanding, prevent, and treat heritable cardiovascular diseases.

More specifically, the role involves developing and utilizing computational tools and systems to analyze and interpret biological or other research data. Utilizes and develops algorithms, computational techniques, and statistical methodologies. Helps in the design of new experiments. Implements end-user needs in database searching and integration. Maintains the computational infrastructure and tracks the flow of samples and information for large-scale studies. Provides web-based bioinformatics and access to public and proprietary databases.

The scope of work will include anayzing biological datasets generated experimentally including but not limited to bulk and single cell multiomics sequencing, epigenomics data including ChIP-Seq and CUT & RUN, and imaging data including spatial transcriptomics; overlapping experimental data with publicaly available genomic and expression datasets including UK Biobank, All of Us, Heart Cell Atlas, and similar datasets. There will also be analysis of genome sequencing data including whole exome- and whole genome sequencing to discern rare and common variants implicated in cardiovascular disease.The incumbent will also implement machine learning algorithms to analyze biological datasets. There will be frequent collaboration with bench scientists and clinicians in a highly collegial and stimulating scientific environment.

Required Qualifications

• Bachelor's degree in biological science, computational / programming, or related area and / or equivalent experience / training
• A minimum of 3 years of relevant work experience in bioinformatics or computational biology
• Thorough knowledge of bioinformatics programming design, modification and implementation in relevant languages such as Python, R, and/or equivalent
• Understanding of relational databases, web interfaces, and operating systems
• Strong project management skills
• Thorough knowledge of modern biology and applicable field of research
• Communication skills to work with both technical and non-technical personnel in multiple fields of expertise and at various levels in the organization
• Ability to communicate technical information in a clear and concise manner
• Ability to interface with management on a regular basis
• Self motivated, work independently or as part of a team, able to learn quickly, meet deadlines and demonstrate problem solving skills
• Thorough knowledge of web, application and data security concepts and methods
• Familiarity with cloud-based computing and high-performance computing environments
• Proven expertise, as reflected in publication record, in analyzing high-throughput sequencing datasets, including RNA-sequencing, ATAC-sequencing, and chromatin occupancy studies
• Thorough In-depth knowledge of genomic databases, tools, and statistical frameworks

Preferred Qualifications

• PhD in Bioinformatics or a closely related field

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. We bring together the world's leading experts in nearly every area of health. We are home to five Nobel laureates who have advanced the understanding of cancer, neurodegenerative diseases, aging and stem cells.

Pride Values

UCSF is a diverse community made of people with many skills and talents. We seek candidates whose work experience or community service has prepared them to contribute to our commitment to professionalism, respect, integrity, diversity and excellence - also known as https://www.ucsf.edu/about/mission-and-values . In addition to , UCSF is committed to equity - both in how we deliver care as well as our workforce. We are committed to building a broadly diverse community, nurturing a culture that is welcoming and supportive, and engaging diverse ideas for the provision of culturally competent education, discovery, and patient care. Additional information about UCSF is available https://diversity.ucsf.edu/ . Join us to find a rewarding career contributing to improving healthcare worldwide.

EEO Statement

The University of California is an Equal Opportunity Employer. All qualified applicants will receive consideration for employment without regard to race, color, religion, sex, sexual orientation, gender identity, national origin, disability, age, protected veteran status, or other protected status under state or federal law.