Allen MA - Search Results

1

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: allen ma. bioRxiv [Preprint]. 2023 Dec 8:2023.12.07.570626. doi: 10.1101/2023.12.07.570626. bioRxiv. 2023. PMID: 38105978 Free PMC article. Preprint.

2

Retrospective reflections of a whistleblower: opinions on misconduct responses.

Allen M, Dowell R. Allen M, et al. Account Res. 2013;20(5-6):339-48. doi: 10.1080/08989621.2013.822249. Account Res. 2013. PMID: 24028481

3

Global analysis of p53-regulated transcription identifies its direct targets and unexpected regulatory mechanisms.

Allen MA, Andrysik Z, Dengler VL, Mellert HS, Guarnieri A, Freeman JA, Sullivan KD, Galbraith MD, Luo X, Kraus WL, Dowell RD, Espinosa JM. Allen MA, et al. Elife. 2014 May 27;3:e02200. doi: 10.7554/eLife.02200. Elife. 2014. PMID: 24867637 Free PMC article.

4

An Annotation Agnostic Algorithm for Detecting Nascent RNA Transcripts in GRO-Seq.

Azofeifa JG, Allen MA, Lladser ME, Dowell RD. Azofeifa JG, et al. Among authors: allen ma. IEEE/ACM Trans Comput Biol Bioinform. 2017 Sep-Oct;14(5):1070-1081. doi: 10.1109/TCBB.2016.2520919. Epub 2016 Jan 26. IEEE/ACM Trans Comput Biol Bioinform. 2017. PMID: 26829802 Free PMC article.

5

RNA Pol II transcription model and interpretation of GRO-seq data.

Lladser ME, Azofeifa JG, Allen MA, Dowell RD. Lladser ME, et al. Among authors: allen ma. J Math Biol. 2017 Jan;74(1-2):77-97. doi: 10.1007/s00285-016-1014-4. Epub 2016 May 3. J Math Biol. 2017. PMID: 27142882

6

Human TFIIH Kinase CDK7 Regulates Transcription-Associated Chromatin Modifications.

Ebmeier CC, Erickson B, Allen BL, Allen MA, Kim H, Fong N, Jacobsen JR, Liang K, Shilatifard A, Dowell RD, Old WM, Bentley DL, Taatjes DJ. Ebmeier CC, et al. Among authors: allen bl, allen ma. Cell Rep. 2017 Aug 1;20(5):1173-1186. doi: 10.1016/j.celrep.2017.07.021. Cell Rep. 2017. PMID: 28768201 Free PMC article.

7

Enhancer RNA profiling predicts transcription factor activity.

Azofeifa JG, Allen MA, Hendrix JR, Read T, Rubin JD, Dowell RD. Azofeifa JG, et al. Among authors: allen ma. Genome Res. 2018 Feb 15;28(3):334-44. doi: 10.1101/gr.225755.117. Online ahead of print. Genome Res. 2018. PMID: 29449408 Free PMC article.

8

Detecting Differential Transcription Factor Activity from ATAC-Seq Data.

Tripodi IJ, Allen MA, Dowell RD. Tripodi IJ, et al. Among authors: allen ma. Molecules. 2018 May 10;23(5):1136. doi: 10.3390/molecules23051136. Molecules. 2018. PMID: 29748466 Free PMC article.

9

Heat shock in C. elegans induces downstream of gene transcription and accumulation of double-stranded RNA.

Melnick M, Gonzales P, Cabral J, Allen MA, Dowell RD, Link CD. Melnick M, et al. Among authors: allen ma. PLoS One. 2019 Apr 8;14(4):e0206715. doi: 10.1371/journal.pone.0206715. eCollection 2019. PLoS One. 2019. PMID: 30958820 Free PMC article.

10

Nascent transcript analysis of glucocorticoid crosstalk with TNF defines primary and cooperative inflammatory repression.

Sasse SK, Gruca M, Allen MA, Kadiyala V, Song T, Gally F, Gupta A, Pufall MA, Dowell RD, Gerber AN. Sasse SK, et al. Among authors: allen ma. Genome Res. 2019 Nov;29(11):1753-1765. doi: 10.1101/gr.248187.119. Epub 2019 Sep 13. Genome Res. 2019. PMID: 31519741 Free PMC article.

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