UNIV - Systems Programmer/Developer II - Department of Neurosciences

Job Description Summary

The Systems Programmer/Developer II will work closely with oncologists, biologists, and geneticists across HCC and MUSC developing, implementing, and applying computational tools to analyzed, visualize and integrate local and independent next generation sequencing data. The successful candidate will need to be able to write original code for specific applications and also be able to use and tailor existing software tools and analytic pipelines.

The candidate will become familiar with in-house developed code, open-source software, and contribute to open-source software projects. In addition, there maybe opportunities to participate as a member of MUSC research teams. The ideal candidate must be able to work independently with limited guidance, keep meticulous records of his/her data analysis, and present results to HCC/MUSC members. The candidate may also perform related responsibilities as required by the Core Director of the MUSC, Dr. Stefano Berto.

Entity

Medical University of South Carolina (MUSC - Univ)

Worker Type

Employee

Worker Sub-Type​

Research Grant

Cost Center

CC000984 COM NEURO RES Operations CC

Pay Rate Type

Salary

Pay Grade

University-06

Pay Range

46,655.00 - 66,488.00 - 86,321.000

Scheduled Weekly Hours

40

Work Shift

Job Description

Job Duties:
• 35% - Under moderate to minimal supervision, lead bioinformatics design and analyses of genetics and transcriptomics datasets from bulk and single-cell RNA sequencing and their integration with other data sources and -omics data.

• 30% - Lead the design and development of software, databases, and pipelines (e.g. nextflow, snakemake) for analyzing and manipulating research data applications including expertise with simple programming using R/Python or Java, statistical programming, web-development, and database query through SQL.

• 15% - Provide bioinformatics support to different research groups at the MUSC and provide guidance/supervision to group-associated bioinformaticians.

• 10% - Provides direct technical support and helps guide, implement, and maintain further improvements to bioinformatics software, databases, and interfaces and works with the entire bioinformatics team to diagnose and fix related issues.

• 5% - May assist in grant and other funding applications, as necessary and appropriate.

• 5% - Performs other responsibilities as required.

Preferred Qualifications:
• Master/PhD in bioinformatics or computer science.
• Desirable: 2/3 years of experience.

Preferred Skills:
• Experience in applied NGS data analysis such as Transcriptomics (RNA-seq, scRNA-seq), Genomics (WGS/WES) and Epigenomics (WGBS, ChIP-seq, ATAC-seq); additional experience with other omics methods is a plus.
• Demonstrable experience in programming languages required for data analysis (R and/or Python); Experience with other programming languages is of advantage.
• A solid foundation in statistics; Experience with advance statistics (e.g. machine learning, deep learning) is of advantage.
• Good working knowledge of Unix/Linux/MacOS.
• Knowledge and use of cloud computing environments, specifically Amazon Web Services and familiarity with cluster (HPC) compute environments.
• Desirable: Experience building and maintaining bioinformatics tools/pipelines; experience with scientific software development is of advantage.

Additional Job Description

Minimum Requirements: A high school diploma and three years work experience in the modification and maintenance of system programs, the design and development of system software, or the testing and debugging of system software. An associate's degree or a bachelor's degree in a related field may be substituted for the required work experience.

Physical Requirements: (Note: The following descriptions are applicable to this section: Continuous - 6-8 hours per shift; Frequent - 2-6 hours per shift; Infrequent - 0-2 hours per shift) Ability to perform job functions in an upright position. (Frequent) Ability to perform job functions in a seated position. (Frequent) Ability to perform job functions while walking/mobile. (Frequent) Ability to work indoors. (Continuous) Ability to work in confined/cramped spaces. (Infrequent) Ability to bend at the waist. (Frequent) Ability to fully use both hands/arms. (Continuous) Ability to perform repetitive motions with hands/wrists/elbows and shoulders. (Frequent) Ability to reach in all directions. (Frequent) Possess good finger dexterity. (Continuous) Ability to maintain tactile sensory functions. (Continuous) Ability to lift, lower, push or pull objects 15 lbs. or more, unassist