Shona Murphy

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Serine-7 of the RNA Polymerase II CTD Is Specifically Required for snRNA Gene Expression

Dirk Eick, D. Eick, Shona Murphy, 2007, Science.

U1 snRNA associates with TFIIH and regulates transcriptional initiation

Hiroshi Kimura, Benjamin Thomas, Alexandre Akoulitchev, 2002, Nature Structural Biology.

Definition of RNA Polymerase II CoTC Terminator Elements in the Human Genome

N. Proudfoot, Takayuki Nojima, M. Dye, 2013, Cell reports.

Updating the RNA polymerase CTD code: adding gene-specific layers.

Sylvain Egloff, Shona Murphy, Martin Dienstbier, 2012, Trends in genetics : TIG.

In vivo footprinting studies suggest a role for chromatin in transcription of the human 7SK gene.

I. Greger, Shona Murphy, D. C. Boyd, 2000, Gene.

P‐TEFb goes viral

Shona Murphy, J. Zaborowska, N. F. Isa, 2015, Inside the cell.

P‐TEFb goes viral

Shona Murphy, J. Zaborowska, N. F. Isa, 2016, BioEssays : news and reviews in molecular, cellular and developmental biology.

DNA sequences complementary to human 7 SK RNA show structural similarities to the short mobile elements of the mammalian genome.

E. Ullu, L. Silengo, F. Altruda, 1984, Journal of molecular biology.

CTCF regulates NELF, DSIF and P-TEFb recruitment during transcription

H. Handa, Y. Yamaguchi, Sylvain Egloff, 2015, Transcription.

BRFU, a TFIIB-like Factor, Is Directly Recruited to the TATA-box of Polymerase III Small Nuclear RNA Gene Promoters through Its Interaction with TATA-binding Protein*

Shona Murphy, P. Čabart, P. Čabart, 2001, The Journal of Biological Chemistry.

Herpes Simplex Virus 1 (HSV-1) ICP22 Protein Directly Interacts with Cyclin-Dependent Kinase (CDK)9 to Inhibit RNA Polymerase II Transcription Elongation

S. Baumli, P. O’Hare, D. O’Reilly, 2014, PloS one.

P‐TEFb is not an essential elongation factor for the intronless human U2 snRNA and histone H2b genes

B. Peterlin, Fan Zhang, Alice Taylor, 2005, The EMBO journal.

Role of the C-terminal domain of RNA polymerase II in expression of small nuclear RNA genes.

Sylvain Egloff, Shona Murphy, 2008, Biochemical Society transactions.

3'-box-dependent processing of human pre-U1 snRNA requires a combination of RNA and protein co-factors.

P. Uguen, Shona Murphy, Patricia Uguen, 2004, Nucleic acids research.

The C‐terminal domain of pol II and a DRB‐sensitive kinase are required for 3′ processing of U2 snRNA

D. Bentley, P. Uguen, Alice Taylor, 2003, The EMBO journal.

BRCA1 cooperates with NUFIP and P-TEFb to activate transcription by RNA polymerase II

H. Chew, Shona Murphy, P. Čabart, 2004, Oncogene.

RNase H2, mutated in Aicardi‐Goutières syndrome, resolves co-transcriptional R-loops to prevent DNA breaks and inflammation

O. Sordet, N. Gromak, Laura-Oana Albulescu, 2022, Nature Communications.

The point of no return: The poly(A)-associated elongation checkpoint

Shona Murphy, Michael Tellier, I. Ferrer-Vicens, 2016, RNA biology.

Impact of Alpha Interferon and Ribavirin on the Function of Maturing Dendritic Cells

P. Klenerman, E. Barnes, V. Cerundolo, 2004, Antimicrobial Agents and Chemotherapy.

CDK9 inhibitors define elongation checkpoints at both ends of RNA polymerase II-transcribed genes

Shona Murphy, Martin Dienstbier, J. Zaborowska, 2015, Nature Structural &Molecular Biology.

CDK9 and PP2A regulate RNA polymerase II transcription termination and coupled RNA maturation

Marjorie Fournier, A. Furger, Svenja Hester, 2022, EMBO reports.

CAPTURE of the Human U2 snRNA Genes Expands the Repertoire of Associated Factors

Marjorie Fournier, Shona Murphy, J. Zaborowska, 2022, Biomolecules.

The Integrator Complex Recognizes a New Double Mark on the RNA Polymerase II Carboxyl-terminal Domain*

Sylvain Egloff, Alice Taylor, Shona Murphy, 2010, The Journal of Biological Chemistry.

Expression of human snRNA genes from beginning to end.

Sylvain Egloff, D. O’Reilly, Shona Murphy, 2008, Biochemical Society transactions.

The RS Domain of Human CFIm68 Plays a Key Role in Selection Between Alternative Sites of Pre-mRNA Cleavage and Polyadenylation

C. Norbury, Shona Murphy, Michael Tellier, 2017, bioRxiv.

The RS Domain of Human CFIm 68 Plays a Key Role in Selection Between Alternative Sites of 1 Pre-mRNA Cleavage and Polyadenylation 2 3 4

C. Norbury, Shona Murphy, Michael Tellier, 2017 .

Transcription of the human U2 snRNA genes continues beyond the 3′ box in vivo

N. Proudfoot, M. Dye, Shona Murphy, 1999, The EMBO journal.

Chromatin Structure Is Implicated in “Late” Elongation Checkpoints on the U2 snRNA and β-Actin Genes

Sylvain Egloff, D. O’Reilly, Shona Murphy, 2009, Molecular and Cellular Biology.

Variant U1 snRNAs are implicated in human pluripotent stem cell maintenance and neuromuscular disease

B. Mandefro, R. Wade-Martins, W. James, 2016, Nucleic acids research.

Chromatin Structure Is Implicated in “Late” Elongation Checkpoints on the U2 snRNA and (cid:2) -Actin Genes (cid:1) §

Sylvain Egloff, D. O’Reilly, Shona Murphy, 2009 .

Mutant Ras and inflammation-driven skin tumorigenesis is suppressed via a JNK-iASPP-AP1 axis

Xin Lu, M. Oti, V. Dötsch, 2022, Cell reports.

Assembly of Human Small Nuclear RNA Gene-specific Transcription Factor IIIB Complex de Novo On and Off Promoter*

Shona Murphy, P. Čabart, 2002, The Journal of Biological Chemistry.

Purified octamer binding transcription factors stimulate RNA polymerase III-mediated transcription of the 7SK RNA gene

A. Pierani, R. Roeder, C. Scheidereit, 1989, Cell.

HSV-1 ICP22 Is a Selective Viral Repressor of Cellular RNA Polymerase II-Mediated Transcription Elongation

O. Bensaude, Shona Murphy, N. F. Isa, 2021, bioRxiv.

CDK9 and PP2A regulate RNA polymerase II transcription termination and coupled RNA maturation

A. Furger, Svenja Hester, Takayuki Nojima, 2021, bioRxiv.

Cracking the RNA polymerase II CTD code.

Shona Murphy, Sylvain Egloff, Shona Murphy, 2008, Trends in genetics : TIG.

The 7SK/P-TEFb snRNP controls ultraviolet radiation-induced transcriptional reprogramming.

Pascal G. P. Martin, T. Kiss, Sylvain Egloff, 2021, Cell reports.

The 7SK snRNP associates with the little elongation complex to promote snRNA gene expression

Raoul Raffel, T. Kiss, Sylvain Egloff, 2017, The EMBO journal.

Ser7 Phosphorylation of the CTD Recruits the RPAP2 Ser5 Phosphatase to snRNA Genes

Tamás Kiss, Justyna Zaborowska, T. Kiss, 2012, Molecular cell.

Regional and temporal specialization in the nucleus: a transcriptionally‐active nuclear domain rich in PTF, Oct1 and PIKA antigens associates with specific chromosomes early in the cell cycle

A. Pombo, R. Roeder, J. Yoon, 1998, The EMBO journal.

Deregulated Expression of Mammalian lncRNA through Loss of SPT6 Induces R-Loop Formation, Replication Stress, and Cellular Senescence

N. Proudfoot, G. Dujardin, Takayuki Nojima, 2018, Molecular cell.

The in vitro transcription of the 7SK RNA gene by RNA polymerase III is dependent only on the presence of an upstream promoter

M. Melli, Shona Murphy, C. Liegro, 1987, Cell.

R-loop homeostasis and cancer mutagenesis promoted by the DNA cytosine deaminase APOBEC3B

Erik N. Bergstrom, L. Alexandrov, M. Carpenter, 2021, bioRxiv.

Regulation of expression of human RNA polymerase II-transcribed snRNA genes

Shona Murphy, J. Guiro, Joana Guiro, 2017, Open Biology.

Influenza Virus Mounts a Two-Pronged Attack on Host RNA Polymerase II Transcription

N. Proudfoot, Takayuki Nojima, E. Fodor, 2018, Cell reports.

The 3′ ends of human pre‐snRNAs are produced by RNA polymerase II CTD‐dependent RNA processing

P. Uguen, Shona Murphy, Patricia Uguen, 2003, The EMBO journal.

A novel TBP-TAF complex on RNA Polymerase II-transcribed snRNA genes

R. Roeder, Alice Taylor, Shona Murphy, 2012, Transcription.

Transcription and splicing: A two‐way street

Shona Murphy, Isabella E Maudlin, Michael Tellier, 2020, Wiley interdisciplinary reviews. RNA.

Noncoding RNAs Set the Stage for RNA Polymerase II Transcription.

Sylvain Egloff, Shona Murphy, Cécilia Studniarek, 2020, Trends in genetics : TIG.

Differentially expressed, variant U1 snRNAs regulate gene expression in human cells

Marek Drozdz, W. James, Shona Murphy, 2013, Genome research.

Splicing of many human genes involves sites embedded within introns

S. Kelly, G. Längst, P. Cook, 2015, Nucleic acids research.

Human snRNA genes use polyadenylation factors to promote efficient transcription termination

D. O’Reilly, Shona Murphy, Martin Dienstbier, 2013, Nucleic acids research.

Human 7SL RNA consists of a 140 nucleotide middle-repetitive sequence inserted in an Alu sequence

E. Ullu, M. Melli, Shona Murphy, 1982, Cell.

RPRD 1 A and RPRD 1 B Are Human RNA Polymerase II C-Terminal Domain Scaffolds for Ser 5 Dephosphorylation

A. Emili, Xinghua Guo, Joyce Li, 2014 .

The pol II CTD: new twists in the tail

Sylvain Egloff, Shona Murphy, J. Zaborowska, 2016, Nature Structural &Molecular Biology.

Differential effects of pre-mRNA splicing inhibitors on RNA polymerase II transcription

Shona Murphy, Michael Tellier, Gilbert Ansa, 2023, bioRxiv.

CDK12 globally stimulates RNA polymerase II transcription elongation and carboxyl-terminal domain phosphorylation

P. Cramer, B. Schwalb, Takayuki Nojima, 2020, Nucleic acids research.

Cytoplasmic mRNA levels are regulated by a combination of chromatin retention and RNA stability

Shona Murphy, Michael Tellier, Callum Henfrey, 2023, bioRxiv.

Regulation of cytoplasmic mRNA level by chromatin retention.

Shona Murphy, Michael Tellier, Callum Henfrey, 2022 .

Effect of CFIm68 knockdown on RNA polymerase II transcription

C. Norbury, Shona Murphy, Michael Tellier, 2019, BMC Research Notes.

Effect of CFIm25 knockout on RNA polymerase II transcription

C. Norbury, Shona Murphy, Michael Tellier, 2018, BMC Research Notes.

Regulation of immunological tolerance by the p53-inhibitor iASPP

Xin Lu, E. Slee, R. Goldin, 2023, Cell Death & Disease.

Incomplete removal of ribosomal RNA can affect chromatin RNA-seq data analysis

Shona Murphy, Michael Tellier, 2020, Transcription.

DOT1L and H3K79 Methylation in Transcription and Genomic Stability

Shona Murphy, Michael Tellier, K. Wood, 2018, Biomolecules.

Unrestrained poly-ADP-ribosylation provides insights into chromatin regulation and human disease

I. Ahel, M. L. Nielsen, L. Palazzo, 2021, Molecular cell.

RPRD1A and RPRD1B Are Human RNA Polymerase II C-Terminal Domain Scaffolds for Ser5 Dephosphorylation

A. Emili, Xinghua Guo, Joyce Li, 2014, Nature Structural &Molecular Biology.

Interaction of proteins with promoter elements of the human U2 snRNA genes in vivo.

Ana Pombo, A. Pombo, Diana C Boyd, 2003, Gene.

A sequence upstream from the coding region is required for the transcription of the 7SK RNA genes.

M. Melli, M. Tripodi, Shona Murphy, 1986, Nucleic acids research.

Pro-inflammatory polarization and colorectal cancer modulate alternative and intronic polyadenylation in primary human macrophages

N. Proudfoot, Takayuki Nojima, M. Oliveira, 2023, bioRxiv.

Common mechanisms of promoter recognition by RNA polymerases II and III.

T. Pieler, Shona Murphy, T. Pieler, 1989, Trends in genetics : TIG.

Functional redundancy of promoter elements ensures efficient transcription of the human 7SK gene in vivo.

T. Gerster, Shona Murphy, N. Watkins, 1995, Journal of molecular biology.

Regulation of mature mRNA levels by RNA processing efficiency

Shona Murphy, Michael Tellier, Callum Henfrey, 2022, NAR genomics and bioinformatics.

APOBEC3B regulates R-loops and promotes transcription-associated mutagenesis in cancer

L. Alexandrov, M. Carpenter, J. McCann, 2023, Nature Genetics.

Cyclin‐dependent kinases: Masters of the eukaryotic universe

Shona Murphy, Aleksandra Pluta, Cécilia Studniarek, 2023, Wiley interdisciplinary reviews. RNA.

CDK7 kinase activity promotes RNA polymerase II promoter escape by facilitating initiation factor release.

B. Schwalb, I. Parfentev, Shona Murphy, 2024, Molecular cell.