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Internal and external normalization of nascent RNA sequencing run-on experiments.
BMC Bioinformatics. 2024 Jan 12;25(1):19. doi: 10.1186/s12859-023-05607-3.
BMC Bioinformatics. 2024.
PMID: 38216877
Free PMC article.
Atlas of nascent RNA transcripts reveals enhancer to gene linkages.
Sigauke RF, Sanford L, Maas ZL, Jones T, Stanley JT, Townsend HA, Allen MA, Dowell RD.
Sigauke RF, et al. Among authors: maas zl.
bioRxiv [Preprint]. 2023 Dec 8:2023.12.07.570626. doi: 10.1101/2023.12.07.570626.
bioRxiv. 2023.
PMID: 38105978
Free PMC article.
Preprint.
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Transcription factor enrichment analysis (TFEA) quantifies the activity of multiple transcription factors from a single experiment.
Rubin JD, Stanley JT, Sigauke RF, Levandowski CB, Maas ZL, Westfall J, Taatjes DJ, Dowell RD.
Rubin JD, et al. Among authors: maas zl.
Commun Biol. 2021 Jun 2;4(1):661. doi: 10.1038/s42003-021-02153-7.
Commun Biol. 2021.
PMID: 34079046
Free PMC article.
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Selective inhibition of CDK7 reveals high-confidence targets and new models for TFIIH function in transcription.
Rimel JK, Poss ZC, Erickson B, Maas ZL, Ebmeier CC, Johnson JL, Decker TM, Yaron TM, Bradley MJ, Hamman KB, Hu S, Malojcic G, Marineau JJ, White PW, Brault M, Tao L, DeRoy P, Clavette C, Nayak S, Damon LJ, Kaltheuner IH, Bunch H, Cantley LC, Geyer M, Iwasa J, Dowell RD, Bentley DL, Old WM, Taatjes DJ.
Rimel JK, et al. Among authors: maas zl.
Genes Dev. 2020 Nov 1;34(21-22):1452-1473. doi: 10.1101/gad.341545.120. Epub 2020 Oct 15.
Genes Dev. 2020.
PMID: 33060135
Free PMC article.
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TFIID Enables RNA Polymerase II Promoter-Proximal Pausing.
Fant CB, Levandowski CB, Gupta K, Maas ZL, Moir J, Rubin JD, Sawyer A, Esbin MN, Rimel JK, Luyties O, Marr MT, Berger I, Dowell RD, Taatjes DJ.
Fant CB, et al. Among authors: maas zl.
Mol Cell. 2020 May 21;78(4):785-793.e8. doi: 10.1016/j.molcel.2020.03.008. Epub 2020 Mar 30.
Mol Cell. 2020.
PMID: 32229306
Free PMC article.
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