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Scientific Programmer

Charlottesville

Scientific Programmer

  • R0043134
  • Charlottesville, Virginia, United States
  • Information Technology
  • The University of Virginia
The Department of Public Health Sciences at the University of Virginia seeks Scientific Programmers for two openings in a computational biology research group led by Nathan Sheffield .

The Scientific Programmers will help support a tech stack that includes Python, R, C++, PostgreSQL, Docker, AWS, Azure, React, Bioconductor, FastAPI, and NodeJS. They are expected to both build new software, and use it to process biological data.

The scientific programmers have two primary responsibilities:
  • Contributing to high quality bioinformatics software. The programmer is responsible for improving methods developed within our group, such as generalizing them to build robust software that is useful beyond the initial project. This includes code review and potentially includes building web-accessible user interfaces to increase outside access.
  • Processing large biological data sets through computational pipelines. This requires curating raw input data, documenting data in biological projects, configuring software, and using local supercomputing resources (SLURM) to process the data. This includes monitoring and improving pipeline performance and developing reports to describe data quality and summarize results. The programmers curate hundreds of terabytes of raw and processed disk space and work with professional systems administrators.


About the Lab: The Databio group ( http://www.databio.org ) is an interdisciplinary and collaborative computational biology research group located in the Center for Public Health Genomics at UVA . We are also affiliated with the Department of Biomedical Engineering , Department of Biochemistry and Molecular Genetics , Department of Public Health Sciences , the School of Data Science , the Cancer Center , and the Child Health Research Center at UVA.

Our research is at the interface of computation and biology, drawing on techniques in computer science, data science, bioinformatics, and machine learning, and applying them to biological questions in cancer, epigenetics, single-cell analysis, development, and genomics. We collect both novel data and public data and make use of UVA’s high-performance cluster for computational approaches to biological questions.

Our biological questions are focused on understanding gene regulation and epigenetics in development and disease, such as cancer, atherosclerosis, and kidney disease. How does DNA encode regulatory networks that enable cellular differentiation? We rely on experimental data from sequencing-based epigenome experiments like ATAC-seq, bisulfite-seq, and ChIP-seq, and we use these data to study fundamental principles of regulatory DNA in human health.

We are building a team of intelligent, creative people who are interested in working together to accomplish great things. We collaborate extensively. We emphasize social coding, using GitHub to share code both within the group and so others can benefit from our work. We seek to write readable, reusable code and apply it to new biological questions. We challenge the norm in academic computational research of individual scientists writing isolated code, and instead push open, multi-author code development. If these topics excite you, please read more about our research interests , recent publications , and philosophy of open data .

For this position, you should have some interest in either building bioinformatics applications or analyzing large biomedical datasets.

Required Qualifications:
  • Bachelor’s degree in Computer Science, MIS, Computer Engineering, or a related discipline and at least 1 year of related experience OR an equivalent combination of experience, education, and certifications.
  • Computational experience with scripting in R or Python
  • A willingness to contribute to team projects (such as building communal software) and demonstrated commitment to sharing software and data with the community.


Preferred Qualifications:
  • Experience with git and GitHub
  • Skill with C++ and object-oriented programming
  • Knowledge of biology


Anticipated hiring range: $60,000 -77,000

TO APPLY:

Please visit UVA job board: https://uva.wd1.myworkdayjobs.com/UVAJobs and search for R0043134

Complete an application online and attach:
  • Cover letter expressing interest and qualifications
  • Resume/ CV
  • Link to GitHub or repository if available


*****Please combine all required application materials in the order listed above into one document and upload in the resume / cv box ***

PROCESS FOR INTERNAL UVA APPLICANTS: Please apply through your Workday Home page, search “Find Jobs”, and search for R0043134

For questions about the application process, please contact Rhiannon O’Coin, Senior Academic Recruiter, rmo2r@virginia.edu

The selected candidate will be required to complete a background check and health assessment per University policy.

COVID Vaccination Requirement and Guidelines

Please visitthe UVA COVID-19 Job Requirements and Guidelines webpageprior to applying for current information regarding vaccination requirementsandguidelines for employment at UVA.

The University of Virginia, i ncluding the UVA Health System which represents the UVA Medical Center, Schools of Medicine and Nursing, UVA Physician’s Group and the Claude Moore Health Sciences Library, are fundamentally committed to the diversity of our faculty and staff. We believe diversity is excellence expressing itself through every person's perspectives and lived experiences. We are equal opportunity and affirmative action employers. All qualified applicants will receive consideration for employment without regard to age, color, disability, gender identity or expression, marital status, national or ethnic origin, political affiliation, race, religion, sex (including pregnancy), sexual orientation, veteran status, and family medical or genetic information.

 

Each agency within the Commonwealth of Virginia is dedicated to recruiting, supporting, and maintaining a competent and diverse work force. Equal Opportunity Employer

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