RT Journal Article
SR Electronic
T1 recount3: summaries and queries for large-scale RNA-seq expression and splicing
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 2021.05.21.445138
DO 10.1101/2021.05.21.445138
A1 Christopher Wilks
A1 Shijie C. Zheng
A1 Feng Yong Chen
A1 Rone Charles
A1 Brad Solomon
A1 Jonathan P. Ling
A1 Eddie Luidy Imada
A1 David Zhang
A1 Lance Joseph
A1 Jeffrey T. Leek
A1 Andrew E. Jaffe
A1 Abhinav Nellore
A1 Leonardo Collado-Torres
A1 Kasper D. Hansen
A1 Ben Langmead
YR 2021
UL http://biorxiv.org/content/early/2021/05/23/2021.05.21.445138.abstract
AB We present recount3, a resource consisting of over 750,000 publicly available human and mouse RNA sequencing (RNA-seq) samples uniformly processed by our new Monorail analysis pipeline. To facilitate access to the data, we provide the recount3 and snapcount R/Bioconductor packages as well as complementary web resources. Using these tools, data can be downloaded as study-level summaries or queried for specific exon-exon junctions, genes, samples, or other features. Monorail can be used to process local and/or private data, allowing results to be directly compared to any study in recount3. Taken together, our tools help biologists maximize the utility of publicly available RNA-seq data, especially to improve their understanding of newly collected data. recount3 is available from http://rna.recount.bio.Competing Interest StatementThe authors have declared no competing interest.