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Enhancer RNA profiling predicts transcription factor activity.
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.
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: azofeifa jg.
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
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A generative model for the behavior of RNA polymerase.
Azofeifa JG, Dowell RD.
Azofeifa JG, et al.
Bioinformatics. 2017 Jan 15;33(2):227-234. doi: 10.1093/bioinformatics/btw599. Epub 2016 Sep 23.
Bioinformatics. 2017.
PMID: 27663494
Free PMC article.
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Genome-wide dose-dependent inhibition of histone deacetylases studies reveal their roles in enhancer remodeling and suppression of oncogenic super-enhancers.
Sanchez GJ, Richmond PA, Bunker EN, Karman SS, Azofeifa J, Garnett AT, Xu Q, Wheeler GE, Toomey CM, Zhang Q, Dowell RD, Liu X.
Sanchez GJ, et al.
Nucleic Acids Res. 2018 Feb 28;46(4):1756-1776. doi: 10.1093/nar/gkx1225.
Nucleic Acids Res. 2018.
PMID: 29240919
Free PMC article.
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Prolonged Cre expression driven by the α-myosin heavy chain promoter can be cardiotoxic.
Pugach EK, Richmond PA, Azofeifa JG, Dowell RD, Leinwand LA.
Pugach EK, et al. Among authors: azofeifa jg.
J Mol Cell Cardiol. 2015 Sep;86:54-61. doi: 10.1016/j.yjmcc.2015.06.019. Epub 2015 Jul 2.
J Mol Cell Cardiol. 2015.
PMID: 26141530
Free PMC article.
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An Annotation Agnostic Algorithm for Detecting Nascent RNA Transcripts in GRO-Seq.
Azofeifa JG, Allen MA, Lladser ME, Dowell RD.
Azofeifa JG, et al.
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.
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