Mary Ann Allen - Publications

2010 Molecular, Cellular and Developmental Biology University of Colorado, Boulder, Boulder, CO, United States 

29 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2021 Janiszewski LN, Minson M, Allen MA, Dowell RD, Palmer AE. Characterization of global gene expression, regulation of metal ions, and infection outcomes in immune competent 129S6 mouse macrophages. Infection and Immunity. IAI0027321. PMID 34370511 DOI: 10.1128/IAI.00273-21  1
2021 Walker CJ, Crocini C, Ramirez D, Killaars AR, Grim JC, Aguado BA, Clark K, Allen MA, Dowell RD, Leinwand LA, Anseth KS. Author Correction: Nuclear mechanosensing drives chromatin remodelling in persistently activated fibroblasts. Nature Biomedical Engineering. PMID 34050334 DOI: 10.1038/s41551-021-00748-3  1
2021 Walker CJ, Crocini C, Ramirez D, Killaars AR, Grim JC, Aguado BA, Clark K, Allen MA, Dowell RD, Leinwand LA, Anseth KS. Nuclear mechanosensing drives chromatin remodelling in persistently activated fibroblasts. Nature Biomedical Engineering. PMID 33875841 DOI: 10.1038/s41551-021-00709-w  1
2021 Seaton KE, Deal A, Han X, Li SS, Clayton A, Heptinstall J, Duerr A, Allen MA, Shen X, Sawant S, Yates NL, Spearman P, Churchyard G, Goepfert PA, Maenza J, et al. Meta-analysis of HIV-1 vaccine elicited mucosal antibodies in humans. Npj Vaccines. 6: 56. PMID 33859204 DOI: 10.1038/s41541-021-00305-8  0.01
2020 Stanley JT, Gilchrist AR, Stabell AC, Allen MA, Sawyer SL, Dowell RD. Two-stage ML Classifier for Identifying Host Protein Targets of the Dengue Protease. Pacific Symposium On Biocomputing. Pacific Symposium On Biocomputing. 25: 487-498. PMID 31797621  1
2019 Cardiello JF, Sanchez GJ, Allen MA, Dowell RD. Lessons from eRNAs: understanding transcriptional regulation through the lens of nascent RNAs. Transcription. 1-16. PMID 31856658 DOI: 10.1080/21541264.2019.1704128  1
2019 Sasse SK, Gruca M, Allen MA, Kadiyala V, Song T, Gally F, Gupta A, Pufall MA, Dowell RD, Gerber AN. Nascent transcript analysis of glucocorticoid crosstalk with TNF defines primary and cooperative inflammatory repression. Genome Research. PMID 31519741 DOI: 10.1101/Gr.248187.119  1
2019 Smith DG, Martinelli R, Besra GS, Illarionov PA, Szatmari I, Brazda P, Allen MA, Xu W, Wang X, Nagy L, Dowell RD, Rook GAW, Rosa Brunet L, Lowry CA. Identification and characterization of a novel anti-inflammatory lipid isolated from Mycobacterium vaccae, a soil-derived bacterium with immunoregulatory and stress resilience properties. Psychopharmacology. PMID 31119329 DOI: 10.1007/S00213-019-05253-9  1
2019 Allen MA. Train students to navigate ethical swamps. Nature. 568: 145. PMID 30971841 DOI: 10.1038/D41586-019-01046-4  0.01
2019 Melnick M, Gonzales P, Cabral J, Allen MA, Dowell RD, Link CD. Heat shock in C. elegans induces downstream of gene transcription and accumulation of double-stranded RNA. Plos One. 14: e0206715. PMID 30958820 DOI: 10.1371/Journal.Pone.0206715  1
2018 Elizaga ML, Li SS, Kochar NK, Wilson GJ, Allen MA, Tieu HVN, Frank I, Sobieszczyk ME, Cohen KW, Sanchez B, Latham TE, Clarke DK, Egan MA, Eldridge JH, Hannaman D, et al. Safety and tolerability of HIV-1 multiantigen pDNA vaccine given with IL-12 plasmid DNA via electroporation, boosted with a recombinant vesicular stomatitis virus HIV Gag vaccine in healthy volunteers in a randomized, controlled clinical trial. Plos One. 13: e0202753. PMID 30235286 DOI: 10.1371/journal.pone.0202753  0.01
2018 Patricia D'Souza M, Allen MA, Baumblatt JAG, Boggiano C, Crotty S, Grady C, Havenar-Daughton C, Heit A, Hu DJ, Kunwar N, McElrath MJ. Innovative approaches to track lymph node germinal center responses to evaluate development of broadly neutralizing antibodies in human HIV vaccine trials. Vaccine. PMID 30097219 DOI: 10.1016/J.Vaccine.2018.07.071  0.01
2018 Tripodi IJ, Allen MA, Dowell RD. Detecting Differential Transcription Factor Activity from ATAC-Seq Data. Molecules (Basel, Switzerland). 23. PMID 29748466 DOI: 10.3390/Molecules23051136  1
2018 Azofeifa JG, Allen MA, Hendrix JR, Read T, Rubin JD, Dowell RD. Enhancer RNA profiling predicts transcription factor activity. Genome Research. PMID 29449408 DOI: 10.1101/Gr.225755.117  1
2017 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. Human TFIIH Kinase CDK7 Regulates Transcription-Associated Chromatin Modifications. Cell Reports. 20: 1173-1186. PMID 28768201 DOI: 10.1016/J.Celrep.2017.07.021  1
2017 Azofeifa JG, Allen MA, Lladser ME, Dowell RD. An Annotation Agnostic Algorithm for Detecting Nascent RNA Transcripts in GRO-Seq. Ieee/Acm Transactions On Computational Biology and Bioinformatics. 14: 1070-1081. PMID 26829802 DOI: 10.1109/Tcbb.2016.2520919  1
2016 Lladser ME, Azofeifa JG, Allen MA, Dowell RD. RNA Pol II transcription model and interpretation of GRO-seq data. Journal of Mathematical Biology. PMID 27142882 DOI: 10.1007/S00285-016-1014-4  1
2014 Bart PA, Huang Y, Karuna ST, Chappuis S, Gaillard J, Kochar N, Shen X, Allen MA, Ding S, Hural J, Liao HX, Haynes BF, Graham BS, Gilbert PB, McElrath MJ, et al. HIV-specific humoral responses benefit from stronger prime in phase Ib clinical trial. The Journal of Clinical Investigation. 124: 4843-56. PMID 25271627 DOI: 10.1172/Jci75894  1
2014 Allen MA, Andrysik Z, Dengler VL, Mellert HS, Guarnieri A, Freeman JA, Sullivan KD, Galbraith MD, Luo X, Kraus WL, Dowell RD, Espinosa JM. Author response: Global analysis of p53-regulated transcription identifies its direct targets and unexpected regulatory mechanisms Elife. DOI: 10.7554/Elife.02200.019  1
2013 Allen M, Dowell R. Retrospective reflections of a whistleblower: opinions on misconduct responses. Accountability in Research. 20: 339-48. PMID 24028481 DOI: 10.1080/08989621.2013.822249  0.01
2013 Galbraith MD, Allen MA, Bensard CL, Wang X, Schwinn MK, Qin B, Long HW, Daniels DL, Hahn WC, Dowell RD, Espinosa JM. HIF1A employs CDK8-mediator to stimulate RNAPII elongation in response to hypoxia. Cell. 153: 1327-39. PMID 23746844 DOI: 10.1016/J.Cell.2013.04.048  1
2011 Grachtchouk M, Pero J, Yang SH, Ermilov AN, Michael LE, Wang A, Wilbert D, Patel RM, Ferris J, Diener J, Allen M, Lim S, Syu LJ, Verhaegen M, Dlugosz AA. Basal cell carcinomas in mice arise from hair follicle stem cells and multiple epithelial progenitor populations. The Journal of Clinical Investigation. 121: 1768-81. PMID 21519145 DOI: 10.1172/Jci46307  0.04
2011 Allen MA, Hillier LW, Waterston RH, Blumenthal T. A global analysis of C. elegans trans-splicing Genome Research. 21: 255-264. PMID 21177958 DOI: 10.1101/Gr.113811.110  1
2010 Lasda EL, Allen MA, Blumenthal T. Polycistronic pre-mRNA processing in vitro: snRNP and pre-mRNA role reversal in trans-splicing. Genes & Development. 24: 1645-58. PMID 20624853 DOI: 10.1101/Gad.1940010  1
2008 Cui M, Allen MA, Larsen A, MacMorris M, Han M, Blumenthal T. Genes involved in pre-mRNA 3′-end formation and transcription termination revealed by a lin-15 operon Muv suppressor screen Proceedings of the National Academy of Sciences of the United States of America. 105: 16665-16670. PMID 18946043 DOI: 10.1073/Pnas.0807104105  1
2008 Vicens Q, Allen MA, Gilbert SD, Reznik B, Gooding AR, Batey RT. The Cech Symposium: a celebration of 25 years of ribozymes, 10 years of TERT, and 60 years of Tom. Rna (New York, N.Y.). 14: 397-403. PMID 18203922 DOI: 10.1261/Rna.910008  1
2005 Allen MA, Liang TS, La Salvia T, Tjugum B, Gulakowski RJ, Murguía M. Assessing the attitudes, knowledge, and awareness of HIV vaccine research among adults in the United States. Journal of Acquired Immune Deficiency Syndromes (1999). 40: 617-24. PMID 16284540  0.01
2003 Allen M, Grachtchouk M, Sheng H, Grachtchouk V, Wang A, Wei L, Liu J, Ramirez A, Metzger D, Chambon P, Jorcano J, Dlugosz AA. Hedgehog signaling regulates sebaceous gland development. The American Journal of Pathology. 163: 2173-8. PMID 14633591 DOI: 10.1016/S0002-9440(10)63574-2  0.04
2002 D'Souza MP, Allen MA, Johnston MI. HIV Vaccines: Biological and Clinical Considerations. Current Infectious Disease Reports. 4: 359-368. PMID 12126613  0.01
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