TempO-seq and RNA-seq gene expression levels are highly correlated for most genes: A comparison using 39 human cell lines

Laura J. Word; Clinton M. Willis; Richard S. Judson; Logan J. Everett; Sarah E. Davidson-Fritz; Derik E. Haggard; Bryant A. Chambers; Jesse D. Rogers; Joseph L. Bundy; Imran Shah; Nisha S. Sipes; Joshua A. Harrill

doi:10.1371/journal.pone.0320862

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Open Access

Peer-reviewed

Research Article

TempO-seq and RNA-seq gene expression levels are highly correlated for most genes: A comparison using 39 human cell lines

Laura J. Word ,

Roles Conceptualization, Data curation, Formal analysis, Investigation, Methodology, Software, Validation, Visualization, Writing – original draft, Writing – review & editing

* E-mail: drlauraword@gmail.com (LJW); harrill.joshua@epa.gov (JAH)

Affiliation Center for Computational Toxicology and Exposure, Office of Research and Development, United States Environmental Protection Agency, Research Triangle Park, North Carolina, United States of America

https://orcid.org/0000-0001-8564-2114

⨯
Clinton M. Willis,

Roles Data curation, Investigation, Resources, Writing – review & editing

Affiliation Center for Computational Toxicology and Exposure, Office of Research and Development, United States Environmental Protection Agency, Research Triangle Park, North Carolina, United States of America
⨯
Richard S. Judson,

Roles Methodology, Supervision

Affiliation Center for Computational Toxicology and Exposure, Office of Research and Development, United States Environmental Protection Agency, Research Triangle Park, North Carolina, United States of America
⨯
Logan J. Everett,

Roles Data curation, Methodology, Writing – review & editing

Affiliation Center for Computational Toxicology and Exposure, Office of Research and Development, United States Environmental Protection Agency, Research Triangle Park, North Carolina, United States of America
⨯
Sarah E. Davidson-Fritz,

Roles Methodology, Writing – review & editing

Affiliation Center for Computational Toxicology and Exposure, Office of Research and Development, United States Environmental Protection Agency, Research Triangle Park, North Carolina, United States of America
⨯
Derik E. Haggard,

Roles Data curation, Writing – review & editing

Affiliation Center for Computational Toxicology and Exposure, Office of Research and Development, United States Environmental Protection Agency, Research Triangle Park, North Carolina, United States of America
⨯
Bryant A. Chambers,

Roles Methodology, Software

Affiliation Center for Computational Toxicology and Exposure, Office of Research and Development, United States Environmental Protection Agency, Research Triangle Park, North Carolina, United States of America
⨯
Jesse D. Rogers,

Roles Software, Writing – review & editing

Affiliation Center for Computational Toxicology and Exposure, Office of Research and Development, United States Environmental Protection Agency, Research Triangle Park, North Carolina, United States of America

https://orcid.org/0000-0001-6667-2342

⨯
Joseph L. Bundy,

Roles Methodology, Software, Writing – review & editing

Affiliation Center for Computational Toxicology and Exposure, Office of Research and Development, United States Environmental Protection Agency, Research Triangle Park, North Carolina, United States of America
⨯
Imran Shah,

Roles Methodology, Writing – review & editing

Affiliation Center for Computational Toxicology and Exposure, Office of Research and Development, United States Environmental Protection Agency, Research Triangle Park, North Carolina, United States of America
⨯
Nisha S. Sipes,

Roles Funding acquisition, Methodology, Writing – review & editing

Affiliation Center for Computational Toxicology and Exposure, Office of Research and Development, United States Environmental Protection Agency, Research Triangle Park, North Carolina, United States of America
⨯
Joshua A. Harrill

Roles Data curation, Methodology, Resources, Supervision, Writing – review & editing

* E-mail: drlauraword@gmail.com (LJW); harrill.joshua@epa.gov (JAH)

Affiliation Center for Computational Toxicology and Exposure, Office of Research and Development, United States Environmental Protection Agency, Research Triangle Park, North Carolina, United States of America

https://orcid.org/0000-0003-4317-6391

⨯

TempO-seq and RNA-seq gene expression levels are highly correlated for most genes: A comparison using 39 human cell lines

Laura J. Word,
Clinton M. Willis,
Richard S. Judson,
Logan J. Everett,
Sarah E. Davidson-Fritz,
Derik E. Haggard,
Bryant A. Chambers,
Jesse D. Rogers,
Joseph L. Bundy,
Imran Shah

Published: May 9, 2025
https://doi.org/10.1371/journal.pone.0320862

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Gene expression
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Gene ontologies
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Principal component analysis
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Transcriptome analysis
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RNA sequencing
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