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TempO-seq and RNA-seq gene expression levels are highly correlated for most genes: A comparison using 39 human cell lines
Journal article published in PLOS One, Vol 20, Issue 5, e0320862, 2025; DOI: https://doi.org/10.1371/journal.pone.0320862; PMC12064016.
The datasets generated and analyzed during the current study are provided in Supplemental S1 File. The RNA-seq data is Protein Atlas Version 23 from the Human Protein Atlas website (https://www.proteinatlas.org/about/download, “RNA HPA cell line gene data” released 2023.06.19). All FASTQ files and aligned counts for the U.S. EPA TempO-seq data have been deposited into NCBI Gene Expression Omnibus under the accession number GSE288929 and are publicly available at: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE288929. The R code is available through FigShare at: https://doi.org/10.23645/epacomptox.27341970.v1.
This dataset is associated with the following publication:
Word, L., C. Willis, R. Judson, L. Everett, S. Davidson-Fritz, D. Haggard, B. Chambers, J. Rogers, J. Bundy, I. Shah, N. Sipes, and J. Harrill. TempO-seq and RNA-seq Gene Expression Levels are Highly Correlated for Most Genes: A Comparison Using 39 Human Cell Lines. PLOS ONE. Public Library of Science, San Francisco, CA, USA, 20(5): e0320862, (2025).
Resources
1 resource available
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https://clowder.edap-cluster.com/datasets/61147fefe4b0856fdc65639b#folderId=67225e95e4b0a7c65d3383bc
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Complete Metadata
| @type | dcat:Dataset |
|---|---|
| accessLevel | public |
| bureauCode |
[ "020:00" ] |
| contactPoint |
{ "fn": "Joshua Harrill", "hasEmail": "mailto:harrill.joshua@epa.gov" } |
| description | Journal article published in PLOS One, Vol 20, Issue 5, e0320862, 2025; DOI: https://doi.org/10.1371/journal.pone.0320862; PMC12064016. The datasets generated and analyzed during the current study are provided in Supplemental S1 File. The RNA-seq data is Protein Atlas Version 23 from the Human Protein Atlas website (https://www.proteinatlas.org/about/download, “RNA HPA cell line gene data” released 2023.06.19). All FASTQ files and aligned counts for the U.S. EPA TempO-seq data have been deposited into NCBI Gene Expression Omnibus under the accession number GSE288929 and are publicly available at: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE288929. The R code is available through FigShare at: https://doi.org/10.23645/epacomptox.27341970.v1. This dataset is associated with the following publication: Word, L., C. Willis, R. Judson, L. Everett, S. Davidson-Fritz, D. Haggard, B. Chambers, J. Rogers, J. Bundy, I. Shah, N. Sipes, and J. Harrill. TempO-seq and RNA-seq Gene Expression Levels are Highly Correlated for Most Genes: A Comparison Using 39 Human Cell Lines. PLOS ONE. Public Library of Science, San Francisco, CA, USA, 20(5): e0320862, (2025). |
| distribution |
[ { "title": "https://clowder.edap-cluster.com/datasets/61147fefe4b0856fdc65639b#folderId=67225e95e4b0a7c65d3383bc", "accessURL": "https://clowder.edap-cluster.com/datasets/61147fefe4b0856fdc65639b#folderId=67225e95e4b0a7c65d3383bc" } ] |
| identifier | https://doi.org/10.23719/1532288 |
| keyword |
[ "RNA-Seq", "TempO-Seq", "gene expression", "in vitro" ] |
| license | https://pasteur.epa.gov/license/sciencehub-license.html |
| modified | 2024-10-30 |
| programCode |
[ "020:000" ] |
| publisher |
{ "name": "U.S. EPA Office of Research and Development (ORD)", "subOrganizationOf": { "name": "U.S. Environmental Protection Agency", "subOrganizationOf": { "name": "U.S. Government" } } } |
| references |
[ "https://doi.org/10.1371/journal.pone.0320862", "https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12064016" ] |
| rights |
null
|
| title | TempO-seq and RNA-seq gene expression levels are highly correlated for most genes: A comparison using 39 human cell lines |
