Appel Lab | Bioinformatician
University Of Colorado- Anschutz Medical Campus
Performed bioinformatic analysis and gene validation on RNA-sequence data to determine differences in gene expression levels among myelinating and non-myelinating oligodendrocyte,in zebrafish populations. Collaborated with a team of developmental biologist to validate findings, leading to authorship on future publications(s).-Prepared samples for Flow Cytometry and RNA sequencing. Techniques included Fluorescent and Confocal Microscopy, cell dissociation, mesh filtration, and gel electrophoresis-Followed molecular biology protocols to validate results. Techniques included Polymerase Chain Reactions (PCR), primer design, probe synthesis, vector cloning, restriction enzyme digests,immunohistochemistry, cryosectioning, and in-situ hybridization-Researched primary literature to design a bioinformatic pipeline to map, align, and annotate RNA-sequence data-Used Python, R, LSF job scheduler, and Unix Shell Scripting to integrate existing scripts into a streamlined analysis-Evaluated hardware capabilities to support analysis of high-throughput data-Networked interdepartmentally; leading to the use of a 400 core cluster. This allowed for the use a more appropriate but computationally intensive algorithm-Statistical analysis and visualization of RNAseq data using R and Microsoft Excel-Created and maintained large research databases. Performed data integration with a third party database using R-Pathway analysis using third party software-Maintained lab notes according to NIH protocol and wrote bioinformatic protocols as a guide for future users-Gave spoken presentations of analysis performed to both the Appel lab and to collaborating labs