The Human Protein Atlas is a website of protein expression in human tissues.It is an excellent resource of tissue locinox verticlose 2 and cell type protein localization, but only allows the query of a single protein at a time.We introduce HPAStainR as a new Shiny app and Bioconductor/R package used to query the scored staining patterns in the Human Protein Atlas with multiple proteins/genes of interest.This allows the user to determine if an experimentally-generated protein/gene list associates with a particular cell type.We validated wavertree and london cosmopolitan candle the tool using the Panglao Database cell type specific marker genes and a Genotype Expression (GTEx) tissue deconvolution dataset.
HPAStainR identified 92% of the Panglao cell types in the top quartile of confidence scores limited to tissue type of origin results.It also appropriately identified the correct cell types from the GTEx dataset.HPAStainR fills a gap in available bioinformatics tools to identify cell type protein expression patterns and can assist in establishing ground truths and exploratory analysis.HPAStainR is available from: https://32tim32.shinyapps.
io/HPAStainR/.