publication
- Genome Res. 2018 Feb 15. doi: 10.1101/gr.225755.117.Azofeifa JG1,2, Allen MA2, Hendrix JR1,3, Read T2,4, Rubin JD4, Dowell RD1,2,3AbstractTranscription factors (TFs) exert their regulatory influence through the binding of enhancers, resulting in
- IEEE/ACM Trans Comput Biol Bioinform. 2017 Sep-Oct;14(5):1070-1081. doi: 10.1109/TCBB.2016.2520919. Epub 2016 Jan 26.An Annotation Agnostic Algorithm for Detecting Nascent RNA Transcripts in GRO-Seq.Azofeifa JG, Allen MA, Lladser ME, Dowell RD.
- Cell Rep. 2017 Aug 1;20(5):1173-1186. doi: 10.1016/j.celrep.2017.07.021.Human TFIIH Kinase CDK7 Regulates Transcription-Associated Chromatin Modifications.Ebmeier CC1, Erickson B2, Allen BL3, Allen MA4, Kim H2, Fong N2, Jacobsen JR5, Liang K6,
- J Math Biol. 2017 Jan;74(1-2):77-97. doi: 10.1007/s00285-016-1014-4. Epub 2016 May 3.RNA Pol II transcription model and interpretation of GRO-seq data.Lladser ME1, Azofeifa JG2, Allen MA3, Dowell RD4.Author informationÌýAbstractA mixture model
- FStitch: A fast and simple algorithm for detecting nascent RNA transcripts.Azofiefa J, Allen M, Lladser M, Dowell R.Proceedings of the 5th ACM Conference on Bioinformatics, Computational Biology, and Health Informatics (ACM-BCB ’14). 2014Ìý
- Elife. 2014 May 27;3:e02200. doi: 10.7554/eLife.02200.Global analysis of p53-regulated transcription identifies its direct targets and unexpected regulatory mechanisms.Allen MA1, Andrysik Z2, Dengler VL2, Mellert HS2, Guarnieri A2, Freeman JA2,
- Account Res. 2013;20(5-6):339-48. doi: 10.1080/08989621.2013.822249.Retrospective reflections of a whistleblower: opinions on misconduct responses.Allen M1, Dowell R.Author informationÌýAbstractAlmost 10 years ago, when I was in my fourth year
- Cell. 2013 Jun 6;153(6):1327-39. doi: 10.1016/j.cell.2013.04.048.HIF1A employs CDK8-mediator to stimulate RNAPII elongation in response to hypoxia.Galbraith MD1, Allen MA, Bensard CL, Wang X, Schwinn MK, Qin B, Long HW, Daniels DL, Hahn WC, Dowell
- J Clin Invest. 2011 May;121(5):1768-81. doi: 10.1172/JCI46307. Epub 2011 Apr 25.Basal cell carcinomas in mice arise from hair follicle stem cells and multiple epithelial progenitor populations.Grachtchouk M1, Pero J, Yang SH, Ermilov AN, Michael LE
- Allen MA, Hillier LW, Waterston RH, Blumenthal T.Genome research. 2011; 21(2):255-64.PMID:21177958PMCID:PMC3032929