Skip to main content
Explore URMC

Eric J. Wagner, Ph.D.


Showing all 50 journal articles & 0 books available

Journal Articles

Enwerem III, Elrod ND, Chang CT, Lin A, Ji P, Bohn JA, Levdansky Y, Wagner EJ, Valkov E, Goldstrohm AC. "Human Pumilio proteins directly bind the CCR4-NOT deadenylase complex to regulate the transcriptome." RNA.. 2021 Apr 0; 27(4):445-464. Epub 2021 Jan 04.

Yuan F, Hankey W, Wagner EJ, Li W, Wang Q. "Alternative polyadenylation of mRNA and its role in cancer." Genes & diseases.. 2021 Jan 0; 8(1):61-72. Epub 2019 Oct 25.

Jensen MK, Elrod ND, Yalamanchili HK, Ji P, Lin A, Liu Z, Wagner EJ. "Application and design considerations for 3'-end sequencing using click-chemistry." Methods in enzymology.. 2021 655:1-23. Epub 2021 May 04.

Yalamanchili HK, Elrod ND, Jensen MK, Ji P, Lin A, Wagner EJ, Liu Z. "A computational pipeline to infer alternative poly-adenylation from 3' sequencing data." Methods in enzymology.. 2021 655:185-204. Epub 2021 Jun 05.

Huang KL, Jee D, Stein CB, Elrod ND, Henriques T, Mascibroda LG, Baillat D, Russell WK, Adelman K, Wagner EJ. "Integrator Recruits Protein Phosphatase 2A to Prevent Pause Release and Facilitate Transcription Termination." Molecular cell.. 2020 Oct 15; 80(2):345-358.e9. Epub 2020 Sep 22.

Yalamanchili HK, Alcott CE, Ji P, Wagner EJ, Zoghbi HY, Liu Z. "PolyA-miner: accurate assessment of differential alternative poly-adenylation from 3'Seq data using vector projections and non-negative matrix factorization." Nucleic acids research.. 2020 Jul 9; 48(12):e69.

Alcott CE, Yalamanchili HK, Ji P, van der Heijden ME, Saltzman A, Elrod N, Lin A, Leng M, Bhatt B, Hao S, Wang Q, Saliba A, Tang J, Malovannaya A, Wagner EJ, Liu Z, Zoghbi HY. "Partial loss of CFIm25 causes learning deficits and aberrant neuronal alternative polyadenylation." eLife.. 2020 Apr 22; 9Epub 2020 Apr 22.

Elrod ND, Henriques T, Huang KL, Tatomer DC, Wilusz JE, Wagner EJ, Adelman K. "The Integrator Complex Attenuates Promoter-Proximal Transcription at Protein-Coding Genes." Molecular cell.. 2019 Dec 5; 76(5):738-752.e7.

Tatomer DC, Elrod ND, Liang D, Xiao MS, Jiang JZ, Jonathan M, Huang KL, Wagner EJ, Cherry S, Wilusz JE. "The Integrator complex cleaves nascent mRNAs to attenuate transcription." Genes & development.. 2019 Nov 1; 33(21-22):1525-1538. Epub 2019 Sep 17.

Yoshimi A, Lin KT, Wiseman DH, Rahman MA, Pastore A, Wang B, Lee SC, Micol JB, Zhang XJ, de Botton S, Penard-Lacronique V, Stein EM, Cho H, Miles RE, Inoue D, Albrecht TR, Somervaille TCP, Batta K, Amaral F, Simeoni F, Wilks DP, Cargo C, Intlekofer AM, Levine RL, Dvinge H, Bradley RK, Wagner EJ, Krainer AR, Abdel-Wahab O. "Coordinated alterations in RNA splicing and epigenetic regulation drive leukaemogenesis." Nature.. 2019 Oct 0; 574(7777):273-277. Epub 2019 Oct 02.

Weng T, Ko J, Masamha CP, Xia Z, Xiang Y, Chen NY, Molina JG, Collum S, Mertens TC, Luo F, Philip K, Davies J, Huang J, Wilson C, Thandavarayan RA, Bruckner BA, Jyothula SS, Volcik KA, Li L, Han L, Li W, Assassi S, Karmouty-Quintana H, Wagner EJ, Blackburn MR. "Cleavage factor 25 deregulation contributes to pulmonary fibrosis through alternative polyadenylation." The Journal of clinical investigation.. 2019 May 1; 129(5):1984-1999. Epub 2019 Feb 28.

Chu Y, Elrod N, Wang C, Li L, Chen T, Routh A, Xia Z, Li W, Wagner EJ, Ji P. "Nudt21 regulates the alternative polyadenylation of Pak1 and is predictive in the prognosis of glioblastoma patients." Oncogene.. 2019 May 0; 38(21):4154-4168. Epub 2019 Jan 31.

Elrod ND, Jaworski EA, Ji P, Wagner EJ, Routh A. "Development of Poly(A)-ClickSeq as a tool enabling simultaneous genome-wide poly(A)-site identification and differential expression analysis." Methods : a companion to Methods in enzymology.. 2019 Feb 15; 155:20-29. Epub 2019 Jan 06.

Wagner EJ, Goldstrohm AC. "Biochemical and Next Generation Sequencing Approaches to Study RNA Regulation." Methods : a companion to Methods in enzymology.. 2019 Feb 15; 155:1-2.

Matera AG, Raimer AC, Schmidt CA, Kelly JA, Droby GN, Baillat D, Ten Have S, Lamond AI, Wagner EJ, Gray KM. "Composition of the Survival Motor Neuron (SMN) Complex in ." G3 : genes - genomes - genetics.. 2019 Feb 7; 9(2):491-503. Epub 2019 Feb 07.

Park HJ, Ji P, Kim S, Xia Z, Rodriguez B, Li L, Su J, Chen K, Masamha CP, Baillat D, Fontes-Garfias CR, Shyu AB, Neilson JR, Wagner EJ, Li W. "3' UTR shortening represses tumor-suppressor genes in trans by disrupting ceRNA crosstalk." Nature genetics.. 2018 Jun 0; 50(6):783-789. Epub 2018 May 21.

Albrecht TR, Shevtsov SP, Wu Y, Mascibroda LG, Peart NJ, Huang KL, Sawyer IA, Tong L, Dundr M, Wagner EJ. "Integrator subunit 4 is a 'Symplekin-like' scaffold that associates with INTS9/11 to form the Integrator cleavage module." Nucleic acids research.. 2018 May 4; 46(8):4241-4255.

Gray KM, Kaifer KA, Baillat D, Wen Y, Bonacci TR, Ebert AD, Raimer AC, Spring AM, Have ST, Glascock JJ, Gupta K, Van Duyne GD, Emanuele MJ, Lamond AI, Wagner EJ, Lorson CL, Matera AG. "Self-oligomerization regulates stability of survival motor neuron protein isoforms by sequestering an SCF degron." Molecular biology of the cell.. 2018 Jan 15; 29(2):96-110. Epub 2017 Nov 22.

Masamha CP, Wagner EJ. "The contribution of alternative polyadenylation to the cancer phenotype." Carcinogenesis.. 2018 Jan 12; 39(1):2-10.

Feng X, Li L, Wagner EJ, Li W. "TC3A: The Cancer 3' UTR Atlas." Nucleic acids research.. 2018 Jan 4; 46(D1):D1027-D1030.

Peart N, Wagner EJ. "A distal auxiliary element facilitates cleavage and polyadenylation of Dux4 mRNA in the pathogenic haplotype of FSHD." Human genetics.. 2017 Sep 0; 136(9):1291-1301. Epub 2017 May 24.

Oegema R, Baillat D, Schot R, van Unen LM, Brooks A, Kia SK, Hoogeboom AJM, Xia Z, Li W, Cesaroni M, Lequin MH, van Slegtenhorst M, Dobyns WB, de Coo IFM, van den Berg D, Verheijen FW, Kremer A, van der Spek PJ, Heijsman D, Wagner EJ, Fornerod M, Mancini GMS. "Correction: Human mutations in integrator complex subunits link transcriptome integrity to brain development." PLoS genetics.. 2017 Aug 0; 13(8):e1006923. Epub 2017 Aug 01.

Routh A, Ji P, Jaworski E, Xia Z, Li W, Wagner EJ. "Poly(A)-ClickSeq: click-chemistry for next-generation 3?-end sequencing without RNA enrichment or fragmentation." Nucleic acids research.. 2017 Jul 7; 45(12):e112.

Oegema R, Baillat D, Schot R, van Unen LM, Brooks A, Kia SK, Hoogeboom AJM, Xia Z, Li W, Cesaroni M, Lequin MH, van Slegtenhorst M, Dobyns WB, de Coo IFM, Verheijen FW, Kremer A, van der Spek PJ, Heijsman D, Wagner EJ, Fornerod M, Mancini GMS. "Human mutations in integrator complex subunits link transcriptome integrity to brain development." PLoS genetics.. 2017 May 0; 13(5):e1006809. Epub 2017 May 25.

Wu Y, Albrecht TR, Baillat D, Wagner EJ, Tong L. "Molecular basis for the interaction between Integrator subunits IntS9 and IntS11 and its functional importance." Proceedings of the National Academy of Sciences of the United States of America.. 2017 Apr 25; 114(17):4394-4399. Epub 2017 Apr 10.

Peart N, Wagner EJ. "Genome-Wide RNAi Screens for RNA Processing Events in Drosophila melanogaster S2 Cells." Methods in molecular biology.. 2017 1648:235-245.

Baillat D, Russell WK, Wagner EJ. "CRISPR-Cas9 mediated genetic engineering for the purification of the endogenous integrator complex from mammalian cells." Protein expression and purification.. 2016 Dec 0; 128:101-8. Epub 2016 Aug 19.

Masamha CP, Xia Z, Peart N, Collum S, Li W, Wagner EJ, Shyu AB. "CFIm25 regulates glutaminase alternative terminal exon definition to modulate miR-23 function." RNA.. 2016 Jun 0; 22(6):830-8. Epub 2016 Apr 19.

Masamha CP, Albrecht TR, Wagner EJ. "Discovery and characterization of a novel CCND1/MRCK gene fusion in mantle cell lymphoma." Journal of hematology & oncology. 2016 Mar 29; 9:30. Epub 2016 Mar 29.

Peart N, Wagner EJ. "Gain-of-function reporters for analysis of mRNA 3'-end formation: Design and optimization." BioTechniques.. 2016 60(3):137-40. Epub 2016 Mar 01.

Baillat D, Wagner EJ. "Integrator: surprisingly diverse functions in gene expression." Trends in biochemical sciences.. 2015 May 0; 40(5):257-64. Epub 2015 Apr 13.

Xia Z, Donehower LA, Cooper TA, Neilson JR, Wheeler DA, Wagner EJ, Li W. "Dynamic analyses of alternative polyadenylation from RNA-seq reveal a 3'-UTR landscape across seven tumour types." Nature communications.. 2014 Nov 20; 5:5274. Epub 2014 Nov 20.

Gardini A, Baillat D, Cesaroni M, Hu D, Marinis JM, Wagner EJ, Lazar MA, Shilatifard A, Shiekhattar R. "Integrator regulates transcriptional initiation and pause release following activation." Molecular cell.. 2014 Oct 2; 56(1):128-139. Epub 2014 Sep 04.

Zhang KL, Zhou X, Han L, Chen LY, Chen LC, Shi ZD, Yang M, Ren Y, Yang JX, Frank TS, Zhang CB, Zhang JX, Pu PY, Zhang JN, Jiang T, Wagner EJ, Li M, Kang CS. "MicroRNA-566 activates EGFR signaling and its inhibition sensitizes glioblastoma cells to nimotuzumab." Molecular cancer. 2014 Mar 20; 13:63. Epub 2014 Mar 20.

Jodoin JN, Shboul M, Albrecht TR, Lee E, Wagner EJ, Reversade B, Lee LA. "The snRNA-processing complex, Integrator, is required for ciliogenesis and dynein recruitment to the nuclear envelope via distinct mechanisms." Biology open.. 2013 Dec 15; 2(12):1390-6. Epub 2013 Dec 15.

Jodoin JN, Sitaram P, Albrecht TR, May SB, Shboul M, Lee E, Reversade B, Wagner EJ, Lee LA. "Nuclear-localized Asunder regulates cytoplasmic dynein localization via its role in the integrator complex." Molecular biology of the cell.. 2013 Sep 0; 24(18):2954-65. Epub 2013 Jul 31.

Wang S, Wagner EJ, Mattox W. "Half pint/Puf68 is required for negative regulation of splicing by the SR splicing factor Transformer2." RNA biology.. 2013 Aug 0; 10(8):1396-406. Epub 2013 Jul 09.

Chen J, Waltenspiel B, Warren WD, Wagner EJ. "Functional analysis of the integrator subunit 12 identifies a microdomain that mediates activation of the Drosophila integrator complex." The Journal of biological chemistry.. 2013 Feb 15; 288(7):4867-77. Epub 2013 Jan 03.

Peart N, Sataluri A, Baillat D, Wagner EJ. "Non-mRNA 3' end formation: how the other half lives." Wiley interdisciplinary reviews. RNA.. 2013 4(5):491-506. Epub 2013 Jun 10.

Chen J, Ezzeddine N, Waltenspiel B, Albrecht TR, Warren WD, Marzluff WF, Wagner EJ. "An RNAi screen identifies additional members of the Drosophila Integrator complex and a requirement for cyclin C/Cdk8 in snRNA 3'-end formation." RNA.. 2012 Dec 0; 18(12):2148-56. Epub 2012 Oct 24.

Albrecht TR, Wagner EJ. "snRNA 3' end formation requires heterodimeric association of integrator subunits." Molecular and cellular biology.. 2012 Mar 0; 32(6):1112-23. Epub 2012 Jan 17.

Wagner EJ, Carpenter PB. "Understanding the language of Lys36 methylation at histone H3." Nature reviews. Molecular cell biology.. 2012 Jan 23; 13(2):115-26. Epub 2012 Jan 23.

van Hoof A, Wagner EJ. "A brief survey of mRNA surveillance." Trends in biochemical sciences.. 2011 Nov 0; 36(11):585-92. Epub 2011 Sep 06.

Ezzeddine N, Chen J, Waltenspiel B, Burch B, Albrecht T, Zhuo M, Warren WD, Marzluff WF, Wagner EJ. "A subset of Drosophila integrator proteins is essential for efficient U7 snRNA and spliceosomal snRNA 3'-end formation." Molecular and cellular biology.. 2011 Jan 0; 31(2):328-41. Epub 2010 Nov 15.

Chen J, Wagner EJ. "snRNA 3' end formation: the dawn of the Integrator complex." Biochemical Society transactions.. 2010 Aug 0; 38(4):1082-7.

Sullivan KD, Mullen TE, Marzluff WF, Wagner EJ. "Knockdown of SLBP results in nuclear retention of histone mRNA." RNA.. 2009 Mar 0; 15(3):459-72. Epub 2009 Jan 20.

Marzluff WF, Wagner EJ, Duronio RJ. "Metabolism and regulation of canonical histone mRNAs: life without a poly(A) tail." Nature reviews. Genetics.. 2008 Nov 0; 9(11):843-54.

Richardson RT, Alekseev OM, Grossman G, Widgren EE, Thresher R, Wagner EJ, Sullivan KD, Marzluff WF, O'Rand MG. "Nuclear autoantigenic sperm protein (NASP), a linker histone chaperone that is required for cell proliferation." The Journal of biological chemistry.. 2006 Jul 28; 281(30):21526-21534. Epub 2006 May 25.

Wagner EJ, Ospina JK, Hu Y, Dundr M, Matera AG, Marzluff WF. "Conserved zinc fingers mediate multiple functions of ZFP100, a U7snRNP associated protein." RNA.. 2006 Jul 0; 12(7):1206-18. Epub 2006 May 18.

Wagner EJ. "Radiological case of the month. Bronchogenic cyst." Maryland state medical journal. 1980 Nov 0; 29(11):85-7.