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MPK1/SLT2 Links Multiple Stress Responses with Gene Expression in Budding Yeast by Phosphorylating Tyr1 of the RNAP II CTD.

Yurko N, Liu X, Yamazaki T, Hoque M, Tian B, Manley JL.

Mol Cell. 2017 Dec 7;68(5):913-925.e3. doi: 10.1016/j.molcel.2017.11.020.


Molecular basis for the recognition of the human AAUAAA polyadenylation signal.

Sun Y, Zhang Y, Hamilton K, Manley JL, Shi Y, Walz T, Tong L.

Proc Natl Acad Sci U S A. 2018 Feb 13;115(7):E1419-E1428. doi: 10.1073/pnas.1718723115. Epub 2017 Dec 5.


Erratum: RNA-binding proteins in neurodegeneration: mechanisms in aggregate.

Conlon EG, Manley JL.

Genes Dev. 2017 Oct 1;31(19):2015. doi: 10.1101/gad.308205.117. No abstract available.


Mtr4/ZFC3H1 protects polysomes through nuclear RNA surveillance.

Ogami K, Manley JL.

Cell Cycle. 2017;16(21):1999-2000. doi: 10.1080/15384101.2017.1377501. Epub 2017 Sep 29. No abstract available.


Comparative analysis of alternative polyadenylation in S. cerevisiae and S. pombe.

Liu X, Hoque M, Larochelle M, Lemay JF, Yurko N, Manley JL, Bachand F, Tian B.

Genome Res. 2017 Oct;27(10):1685-1695. doi: 10.1101/gr.222331.117. Epub 2017 Sep 15.


RNA-binding proteins in neurodegeneration: mechanisms in aggregate.

Conlon EG, Manley JL.

Genes Dev. 2017 Aug 1;31(15):1509-1528. doi: 10.1101/gad.304055.117. Review. Erratum in: Genes Dev. 2017 Oct 1;31(19):2015.


The RNA polymerase II CTD "orphan" residues: Emerging insights into the functions of Tyr-1, Thr-4, and Ser-7.

Yurko NM, Manley JL.

Transcription. 2018;9(1):30-40. doi: 10.1080/21541264.2017.1338176. Epub 2017 Oct 4.


An Mtr4/ZFC3H1 complex facilitates turnover of unstable nuclear RNAs to prevent their cytoplasmic transport and global translational repression.

Ogami K, Richard P, Chen Y, Hoque M, Li W, Moresco JJ, Yates JR 3rd, Tian B, Manley JL.

Genes Dev. 2017 Jul 21. doi: 10.1101/gad.302604.117. [Epub ahead of print]


Roles of Sumoylation in mRNA Processing and Metabolism.

Richard P, Vethantham V, Manley JL.

Adv Exp Med Biol. 2017;963:15-33. doi: 10.1007/978-3-319-50044-7_2. Review.


SRSF10 Connects DNA Damage to the Alternative Splicing of Transcripts Encoding Apoptosis, Cell-Cycle Control, and DNA Repair Factors.

Shkreta L, Toutant J, Durand M, Manley JL, Chabot B.

Cell Rep. 2016 Nov 15;17(8):1990-2003. doi: 10.1016/j.celrep.2016.10.071.


Alternative polyadenylation of mRNA precursors.

Tian B, Manley JL.

Nat Rev Mol Cell Biol. 2017 Jan;18(1):18-30. doi: 10.1038/nrm.2016.116. Epub 2016 Sep 28. Review.


The C9ORF72 GGGGCC expansion forms RNA G-quadruplex inclusions and sequesters hnRNP H to disrupt splicing in ALS brains.

Conlon EG, Lu L, Sharma A, Yamazaki T, Tang T, Shneider NA, Manley JL.

Elife. 2016 Sep 13;5. pii: e17820. doi: 10.7554/eLife.17820.


R Loops and Links to Human Disease.

Richard P, Manley JL.

J Mol Biol. 2017 Oct 27;429(21):3168-3180. doi: 10.1016/j.jmb.2016.08.031. Epub 2016 Sep 4. Review.


XRN2 Links Transcription Termination to DNA Damage and Replication Stress.

Morales JC, Richard P, Patidar PL, Motea EA, Dang TT, Manley JL, Boothman DA.

PLoS Genet. 2016 Jul 20;12(7):e1006107. doi: 10.1371/journal.pgen.1006107. eCollection 2016 Jul.


cFLIP expression is altered in severe corticosteroid-resistant asthma.

Lazarev D, Miller RL, Dimango E, Fu XD, Li HR, Logan CJ, Manley JL.

Genom Data. 2014 May 23;2:99-104. doi: 10.1016/j.gdata.2014.05.003. eCollection 2014 Dec.


Disease-associated mutation in SRSF2 misregulates splicing by altering RNA-binding affinities.

Zhang J, Lieu YK, Ali AM, Penson A, Reggio KS, Rabadan R, Raza A, Mukherjee S, Manley JL.

Proc Natl Acad Sci U S A. 2015 Aug 25;112(34):E4726-34. doi: 10.1073/pnas.1514105112. Epub 2015 Aug 10.


ALS mutations in TLS/FUS disrupt target gene expression.

Coady TH, Manley JL.

Genes Dev. 2015 Aug 15;29(16):1696-706. doi: 10.1101/gad.267286.115. Epub 2015 Aug 6.


Mutant p53 cooperates with the SWI/SNF chromatin remodeling complex to regulate VEGFR2 in breast cancer cells.

Pfister NT, Fomin V, Regunath K, Zhou JY, Zhou W, Silwal-Pandit L, Freed-Pastor WA, Laptenko O, Neo SP, Bargonetti J, Hoque M, Tian B, Gunaratne J, Engebraaten O, Manley JL, Børresen-Dale AL, Neilsen PM, Prives C.

Genes Dev. 2015 Jun 15;29(12):1298-315. doi: 10.1101/gad.263202.115. Epub 2015 Jun 16.


SUMOylation Is an Inhibitory Constraint that Regulates the Prion-like Aggregation and Activity of CPEB3.

Drisaldi B, Colnaghi L, Fioriti L, Rao N, Myers C, Snyder AM, Metzger DJ, Tarasoff J, Konstantinov E, Fraser PE, Manley JL, Kandel ER.

Cell Rep. 2015 Jun 23;11(11):1694-702. doi: 10.1016/j.celrep.2015.04.061. Epub 2015 Jun 11.


The end of the message: multiple protein-RNA interactions define the mRNA polyadenylation site.

Shi Y, Manley JL.

Genes Dev. 2015 May 1;29(9):889-97. doi: 10.1101/gad.261974.115. Review.


Systematic profiling of poly(A)+ transcripts modulated by core 3' end processing and splicing factors reveals regulatory rules of alternative cleavage and polyadenylation.

Li W, You B, Hoque M, Zheng D, Luo W, Ji Z, Park JY, Gunderson SI, Kalsotra A, Manley JL, Tian B.

PLoS Genet. 2015 Apr 23;11(4):e1005166. doi: 10.1371/journal.pgen.1005166. eCollection 2015 Apr.


A journey to the end of the message.

Manley JL.

RNA. 2015 Apr;21(4):538-40. doi: 10.1261/rna.050724.115. No abstract available.


Sumoylation controls the timing of Tup1-mediated transcriptional deactivation.

Ng CH, Akhter A, Yurko N, Burgener JM, Rosonina E, Manley JL.

Nat Commun. 2015 Mar 13;6:6610. doi: 10.1038/ncomms7610.


RBBP6 isoforms regulate the human polyadenylation machinery and modulate expression of mRNAs with AU-rich 3' UTRs.

Di Giammartino DC, Li W, Ogami K, Yashinskie JJ, Hoque M, Tian B, Manley JL.

Genes Dev. 2014 Oct 15;28(20):2248-60. doi: 10.1101/gad.245787.114.


CPSF30 and Wdr33 directly bind to AAUAAA in mammalian mRNA 3' processing.

Chan SL, Huppertz I, Yao C, Weng L, Moresco JJ, Yates JR 3rd, Ule J, Manley JL, Shi Y.

Genes Dev. 2014 Nov 1;28(21):2370-80. doi: 10.1101/gad.250993.114. Epub 2014 Oct 9.


New links between mRNA polyadenylation and diverse nuclear pathways.

Di Giammartino DC, Manley JL.

Mol Cells. 2014 Sep;37(9):644-9. doi: 10.14348/molcells.2014.0177. Epub 2014 Aug 1. Review.


Threonine-4 of the budding yeast RNAP II CTD couples transcription with Htz1-mediated chromatin remodeling.

Rosonina E, Yurko N, Li W, Hoque M, Tian B, Manley JL.

Proc Natl Acad Sci U S A. 2014 Aug 19;111(33):11924-31. doi: 10.1073/pnas.1412802111. Epub 2014 Jul 28.


SETX sumoylation: A link between DNA damage and RNA surveillance disrupted in AOA2.

Richard P, Manley JL.

Rare Dis. 2014 Jan 21;2:e27744. doi: 10.4161/rdis.27744. eCollection 2014.


RNAP II CTD tyrosine 1 performs diverse functions in vertebrate cells.

Hsin JP, Li W, Hoque M, Tian B, Manley JL.

Elife. 2014 May 8;3:e02112. doi: 10.7554/eLife.02112.


Function and control of RNA polymerase II C-terminal domain phosphorylation in vertebrate transcription and RNA processing.

Hsin JP, Xiang K, Manley JL.

Mol Cell Biol. 2014 Jul;34(13):2488-98. doi: 10.1128/MCB.00181-14. Epub 2014 Apr 21.


Delineating the structural blueprint of the pre-mRNA 3'-end processing machinery.

Xiang K, Tong L, Manley JL.

Mol Cell Biol. 2014 Jun;34(11):1894-910. doi: 10.1128/MCB.00084-14. Epub 2014 Mar 3. Review.


In vitro analysis of transcriptional activators and polyadenylation.

Nagaike T, Manley JL.

Methods Mol Biol. 2014;1125:65-74. doi: 10.1007/978-1-62703-971-0_6.


Kub5-Hera, the human Rtt103 homolog, plays dual functional roles in transcription termination and DNA repair.

Morales JC, Richard P, Rommel A, Fattah FJ, Motea EA, Patidar PL, Xiao L, Leskov K, Wu SY, Hittelman WN, Chiang CM, Manley JL, Boothman DA.

Nucleic Acids Res. 2014 Apr;42(8):4996-5006. doi: 10.1093/nar/gku160. Epub 2014 Mar 3.


Transcriptome analysis of alternative splicing events regulated by SRSF10 reveals position-dependent splicing modulation.

Zhou X, Wu W, Li H, Cheng Y, Wei N, Zong J, Feng X, Xie Z, Chen D, Manley JL, Wang H, Feng Y.

Nucleic Acids Res. 2014 Apr;42(6):4019-30. doi: 10.1093/nar/gkt1387. Epub 2014 Jan 17.


Misregulation of pre-mRNA alternative splicing in cancer.

Zhang J, Manley JL.

Cancer Discov. 2013 Nov;3(11):1228-37. doi: 10.1158/2159-8290.CD-13-0253. Epub 2013 Oct 21. Review.


How bidirectional becomes unidirectional.

Richard P, Manley JL.

Nat Struct Mol Biol. 2013 Sep;20(9):1022-4. doi: 10.1038/nsmb.2657. No abstract available.


Target specificity among canonical nuclear poly(A) polymerases in plants modulates organ growth and pathogen response.

Vi SL, Trost G, Lange P, Czesnick H, Rao N, Lieber D, Laux T, Gray WM, Manley JL, Groth D, Kappel C, Lenhard M.

Proc Natl Acad Sci U S A. 2013 Aug 20;110(34):13994-9. doi: 10.1073/pnas.1303967110. Epub 2013 Aug 5.


Far upstream element-binding protein 1 and RNA secondary structure both mediate second-step splicing repression.

Li H, Wang Z, Zhou X, Cheng Y, Xie Z, Manley JL, Feng Y.

Proc Natl Acad Sci U S A. 2013 Jul 16;110(29):E2687-95. doi: 10.1073/pnas.1310607110. Epub 2013 Jul 1.


Alternative cleavage and polyadenylation: the long and short of it.

Tian B, Manley JL.

Trends Biochem Sci. 2013 Jun;38(6):312-20. doi: 10.1016/j.tibs.2013.03.005. Epub 2013 Apr 27. Review.


SELEX to identify protein-binding sites on RNA.

Manley JL.

Cold Spring Harb Protoc. 2013 Feb 1;2013(2):156-63. doi: 10.1101/pdb.prot072934.


PARP1 represses PAP and inhibits polyadenylation during heat shock.

Di Giammartino DC, Shi Y, Manley JL.

Mol Cell. 2013 Jan 10;49(1):7-17. doi: 10.1016/j.molcel.2012.11.005. Epub 2012 Dec 6.


Mdm2 and MdmX as Regulators of Gene Expression.

Biderman L, Manley JL, Prives C.

Genes Cancer. 2012 Mar;3(3-4):264-73. doi: 10.1177/1947601912455331.


An unexpected binding mode for a Pol II CTD peptide phosphorylated at Ser7 in the active site of the CTD phosphatase Ssu72.

Xiang K, Manley JL, Tong L.

Genes Dev. 2012 Oct 15;26(20):2265-70. doi: 10.1101/gad.198853.112.


An open trial of pregabalin as an acute and maintenance adjunctive treatment for outpatients with treatment resistant bipolar disorder.

Schaffer LC, Schaffer CB, Miller AR, Manley JL, Piekut JA, Nordahl TE.

J Affect Disord. 2013 May;147(1-3):407-10. doi: 10.1016/j.jad.2012.09.005. Epub 2012 Oct 4.


The RNA polymerase II CTD coordinates transcription and RNA processing.

Hsin JP, Manley JL.

Genes Dev. 2012 Oct 1;26(19):2119-37. doi: 10.1101/gad.200303.112. Review.


TLS/FUS: a protein in cancer and ALS.

Tan AY, Manley JL.

Cell Cycle. 2012 Sep 15;11(18):3349-50. doi: 10.4161/cc.21875. Epub 2012 Aug 23.


The yeast regulator of transcription protein Rtr1 lacks an active site and phosphatase activity.

Xiang K, Manley JL, Tong L.

Nat Commun. 2012 Jul 10;3:946. doi: 10.1038/ncomms1947.


TLS/FUS (translocated in liposarcoma/fused in sarcoma) regulates target gene transcription via single-stranded DNA response elements.

Tan AY, Riley TR, Coady T, Bussemaker HJ, Manley JL.

Proc Natl Acad Sci U S A. 2012 Apr 17;109(16):6030-5. doi: 10.1073/pnas.1203028109. Epub 2012 Mar 29.


Sumoylation of transcription factor Gcn4 facilitates its Srb10-mediated clearance from promoters in yeast.

Rosonina E, Duncan SM, Manley JL.

Genes Dev. 2012 Feb 15;26(4):350-5. doi: 10.1101/gad.184689.111.

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