Publication Date

Fall 2021

Degree Type

Master's Project

Degree Name

Master of Science in Bioinformatics (MSBI)

Department

Computer Science

First Advisor

Philip Heller

Keywords

Skeletal Muscle, Circadian Rhythm, Microgravity, Nextflow

Abstract

he trip to Mars and back is planned for the next 20 years. Improvement in technology and research has allowed data analysis, at a larger scale, on spaceflight specimen. However, research involving spaceflight is decentralized, as research is spread across laboratories with different methodologies. NASA’S GeneLab is a public repository for spaceflight-related omics data and promotes centralizing spaceflight RNA-Seq studies using NASA’s RNA-Seq pipeline. Jonathan Oribello, a SJSU’s Bioinformatics graduate and now an employee at GeneLab, has implemented Nextflow to NASA’s RNA-Seq pipeline. The Nextflow RNA-Seq pipeline was ran on San Jose State University’s College of Science High Performance Computing system, using study GLDS-103 from GeneLab. The results have shown the reproducibility of Nextflow, and new insights through customizable inputs. This project has shown possible insights to the skeletal muscle system, and the effects of microgravity on the circadian rhythm.

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