@article{633997ebdb9340fcb995c8380a8a9eec,
title = "recount3: summaries and queries for large-scale RNA-seq expression and splicing",
abstract = "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.",
author = "Christopher Wilks and Zheng, {Shijie C.} and Chen, {Feng Yong} and Rone Charles and Brad Solomon and Ling, {Jonathan P.} and Imada, {Eddie Luidy} and David Zhang and Lance Joseph and Leek, {Jeffrey T.} and Jaffe, {Andrew E.} and Abhinav Nellore and Leonardo Collado-Torres and Hansen, {Kasper D.} and Ben Langmead",
note = "Funding Information: This work used the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by National Science Foundation grant number ACI-1548562. In particular, we acknowledge Texas Advanced Computing Center (TACC) at The University of Texas at Austin for providing HPC resources that have contributed to the research results reported within this paper. URL: http://www.tacc.utexas.edu . Funding Information: This work used the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by National Science Foundation grant number ACI-1548562. In particular, we acknowledge Texas Advanced Computing Center (TACC) at The University of Texas at Austin for providing HPC resources that have contributed to the research results reported within this paper. URL: http://www.tacc.utexas.edu. This work was also partly conducted using computational resources at the Maryland Advanced Research Computing Center (MARCC). Barbara Cheifet was the primary editor of this article and managed its editorial process and peer review in collaboration with the rest of the editorial team. The review history is available as Additional file?1. Funding Information: CW, BL, KDH, SCJ, FYC, RC, BS, JTL, AN, and LCT were supported by R01GM121459 to KDH. CW, RC, BS, and BL were supported by R01GM118568 and R35GM139602 to BL. DZ is supported through the award of UK Medical Research Council funding awarded to Mina Ryten (Tenure Track Clinician Scientist Fellowship, MR/N008324/1). Publisher Copyright: {\textcopyright} 2021, The Author(s).",
year = "2021",
month = dec,
doi = "10.1186/s13059-021-02533-6",
language = "English (US)",
volume = "22",
journal = "Genome Biology",
issn = "1474-7596",
publisher = "BioMed Central",
number = "1",
}