From castaways to discoveries: unveiling treasures in skin RNAseq using a novel multidimensional data processing workflow including infection-host dynamics.
Document Type
Article
Publication Date
5-1-2025
Publication Title
Physiological genomics
Abstract
Defining physiology and methods to measure biological mechanisms is essential. Extensive datasets such as RNA sequencing are used with little analysis of the knowledge gained from the various methodologies. Within this work, we have processed publicly available NCBI RNAseq datasets using a combination of bioinformatics tools for the largest physiological organ, the skin. In many datasets, we identify the quality of the sample, human transcript mapping, the sex of each sample, foreign RNA from bacteria/viruses/protists, and the presence of B/T-cell immune repertoire. Processing 8,274 samples from 132 different experiments for skin samples identifies common flora of skin with elevation of protists (such as
Volume
57
Issue
5
First Page
343
Last Page
356
Recommended Citation
Bhargava D, Labadie A, Hanson-Rios-Stutz RL, Goodyke A, Moses EM, Das AS et al [Caulfield AJ, Olivero R, Foster K, Ashack K, Rajasekaran S, Bupp CP, Krawczyk CM, Chesla D, Sims MD, Hartog NL, Prokop JW] From castaways to discoveries: unveiling treasures in skin RNAseq using a novel multidimensional data processing workflow including infection-host dynamics. Physiol Genomics. 2025 May 1;57(5):343-356. doi: 10.1152/physiolgenomics.00093.2024. PMID: 40073040.
DOI
10.1152/physiolgenomics.00093.2024
ISSN
1531-2267
PubMed ID
40073040
