Seelig, GeorgZhang, Yue2022-07-142022-07-142022-07-142022Zhang_washington_0250E_24428.pdfhttp://hdl.handle.net/1773/48889Thesis (Ph.D.)--University of Washington, 2022Analysis of single cell RNA sequencing (scRNA-seq) datasets is a complex and time-consuming process, requiring both biological knowledge and technical skill. With the rapid growth in scRNA-seq datasets and the increasing number of biological applications, there is a need to simplify and systematize this process. In order to systematize and simplify this process, we introduce three tools to aid : UNCURL, CellMeSH, and UNCURL-App. UNCURL is a preprocessing tool that assists in dimensionality reduction and clustering of scRNA-seq data. CellMeSH is a database and associated query method that allows for the easy identification of cell types present in single cell data. UNCURL-App is an online GUI-based interactive web app which integrates multiple stages of the data analysis pipeline into a single interface, including dimensionality reduction, clustering, differential expression, and cell type identification. Together, these tools encompass all stages of the scRNA-seq cell type annotation pipeline into a single user-friendly interface.application/pdfen-USCC BYsingle cell rna-seqComputer scienceBioinformaticsComputer science and engineeringThesis