Graph of elongation shift in drosophila mutant

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

Jan. 1, 2017

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 ME 1 , Azofeifa JG 2 , Allen MA 3 , Dowell RD 4 . Author information Abstract A mixture model and statistical method is proposed to interpret...

Fstitch example

FStitch: A fast and simple algorithm for detecting nascent RNA transcripts.

Sept. 1, 2014

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). 2014 September; pdf

priming hypothesis

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

May 27, 2014

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 MA 1 , Andrysik Z 2 , Dengler VL 2 , Mellert HS 2 , Guarnieri A 2 , Freeman JA 2 , Sullivan KD 2 , Galbraith MD 2...

whistle

Retrospective reflections of a whistleblower: opinions on misconduct responses.

Sept. 12, 2013

Account Res. 2013;20(5-6):339-48. doi: 10.1080/08989621.2013.822249. Retrospective reflections of a whistleblower: opinions on misconduct responses. Allen M 1 , Dowell R . Author information Abstract Almost 10 years ago, when I was in my fourth year of graduate school, my fellow graduate students discovered that our thesis advisor had engaged in...

Hif1a diagram

HIF1A employs CDK8-mediator to stimulate RNAPII elongation in response to hypoxia.

June 6, 2013

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 MD 1 , Allen MA , Bensard CL , Wang X , Schwinn MK , Qin B , Long HW , Daniels DL , Hahn WC , Dowell RD , Espinosa JM...

dorsal paw H and e staining

Basal cell carcinomas in mice arise from hair follicle stem cells and multiple epithelial progenitor populations.

May 1, 2011

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 M 1 , Pero J , Yang SH , Ermilov AN , Michael LE , Wang A , Wilbert D , Patel...

percentage SLI vs. SL2 in downstream genes in operons

A global analysis of C. elegans trans-splicing.

Feb. 21, 2011

Allen MA, Hillier LW, Waterston RH, Blumenthal T. Genome research. 2011; 21(2):255-64. PMID: 21177958 PMCID: PMC3032929

elegans operon

Polycistronic pre-mRNA processing in vitro: snRNP and pre-mRNA role reversal in trans-splicing.

Aug. 1, 2010

Lasda EL, Allen MA, Blumenthal T. Genes & development. 2010; 24(15):1645-58. PMID: 20624853 PMCID: PMC2912562

elegans mutations

Genes involved in pre-mRNA 3'-end formation and transcription termination revealed by a lin-15 operon Muv suppressor screen.

Oct. 22, 2008

Cui M, Allen MA, Larsen A, Macmorris M, Han M, Blumenthal T. Proceedings of the National Academy of Sciences of the United States of America. 2008; 105(43):16665-70. PubMed [journal] PMID: 18946043 PMCID: PMC2571909

Tom Cech

The Cech Symposium: a celebration of 25 years of ribozymes, 10 years of TERT, and 60 years of Tom.

Jan. 18, 2008

Vicens Q, Allen MA, Gilbert SD, Reznik B, Gooding AR, Batey RT. RNA (New York, N.Y.). 2008; 14(3):397-403. PubMed [journal] PMID: 18203922 PMCID: PMC2248266

Pages