Dr. Michael Love
Assistant Professor
Department of Genetics and Biostatistics
University of North Carolina at Chapel Hill 

Isoform-Level Analysis, Auditable Transcriptomic Pipelines, and Single-Cell Allelic Imbalance: Swish, Tximeta, and Airpart Methods

I will describe three challenges related to data analysis of gene expression, and software packages developed by my lab to address these. In the first part, I will discuss challenges associated with across-sample comparison of the abundance of RNA transcripts with similar sequence via short sequenced reads, and a non-parametric method called `Swish` to address this problem. In the second part, I will discuss the widespread problem of missing annotation metadata for RNA-seq datasets, and how this can lead to challenges for computational reproducibility and data analysis. I will describe our software `Tximeta`, which can eliminate these issues through programmatic hashing and retrieval of reference sequences. Finally, I will discuss a new method from my lab, `Airpart` for grouping cells by similar allelic imbalance, for identification of cell-type-specific gene regulation.

plate with fork and knife, books, microscope and test tubes
Sponsor(s)
Medicine: Biostatistics
Speaker(s)
Dr. Michael Love
Audience
VCU Faculty, VCU Staff, VCU Students , School of Medicine