Author details

Full Name

Craig D Kaplan

Affiliation

University of Pittsburgh

ORCID

Career Start Year

1995

Papers

H Index

Expertise

CM4AI Collaborator

Nevan J Krogan (CM4AI)

PMID	Paper Title	Journal Title	Published Year
36909581	Widespread epistasis shapes RNA Polymerase II active site function and evolution.	bioRxiv	2023
37790421	Structural basis of transcription: RNA Polymerase II substrate binding and metal coordination at 3.0 Ã¿ using a free-electron laser.	bioRxiv	2023
36947548	Characterization of RNA polymerase II trigger loop mutations using molecular dynamics simulations and machine learning.	PLoS Comput Biol	2023
37076734	Insufficient evidence for non-neutrality of synonymous mutations.	Nature	2023
37094154	Mediator and Pol II go to eleven (CTD repeats).	Proc Natl Acad Sci U S A	2023
35051353	Structural visualization of de novo transcription initiation by Saccharomyces cerevisiae RNA polymerase II.	Mol Cell	2022
36041630	Systematic mutagenesis of TFIIH subunit p52/Tfb2 identifies residues required for XPB/Ssl2 subunit function and genetic interactions with TFB6.	J Biol Chem	2022
34099686	Cryo-EM structure of TFIIH/Rad4-Rad23-Rad33 in damaged DNA opening in nucleotide excision repair.	Nat Commun	2021
33665635	Germline mutation in POLR2A: a heterogeneous, multi-systemic developmental disorder characterized by transcriptional dysregulation.	HGG Adv	2021
33662401	A genome-wide copper-sensitized screen identifies novel regulators of mitochondrial cytochrome c oxidase activity.	J Biol Chem	2021
34652274	Ssl2/TFIIH function in transcription start site scanning by RNA polymerase II in <i>Saccharomyces cerevisiae</i>.	Elife	2021
34297929	A PICture is worth a thousand words (and ten references).	Cell	2021
32253873	A novel homozygous nonsense mutation (p.Y78*) in TMPRSS6 gene causing iron-refractory iron deficiency anemia (IRIDA) in two siblings.	Turk J Pediatr	2020
32103605	Organismal benefits of transcription speed control at gene boundaries.	EMBO Rep	2020
32490565	Specialized RSC: Substrate Specificities for a Conserved Chromatin Remodeler.	Bioessays	2020
32487207	Universal promoter scanning by Pol II during transcription initiation in Saccharomyces cerevisiae.	Genome Biol	2020
30463882	Perturbations of Transcription and Gene Expression-Associated Processes Alter Distribution of Cell Size Values in <i>Saccharomyces cerevisiae</i>.	G3 (Bethesda)	2019
30797033	Functional assays for transcription mechanisms in high-throughput.	Methods	2019
29298339	Correction: High-Resolution Phenotypic Landscape of the RNA Polymerase II Trigger Loop.	PLoS Genet	2018
25122732	Cognitive Testing to Identify Children With ADHD Who Do and Do Not Respond to Methylphenidate.	J Atten Disord	2017
28119420	Wide-ranging and unexpected consequences of altered Pol II catalytic activity in vivo.	Nucleic Acids Res	2017
27573684	Pairs of promoter pairs in a web of transcription.	Nat Genet	2016
27898685	High-Resolution Phenotypic Landscape of the RNA Polymerase II Trigger Loop.	PLoS Genet	2016
27261007	Relationships Between RNA Polymerase II Activity and Spt Elongation Factors to Spt- Phenotype and Growth in Saccharomyces cerevisiae.	G3 (Bethesda)	2016
27383794	The mechanism of RNA 5â¿² capping with NAD+, NADH and desphospho-CoA.	Nature	2016
27226557	RNA Polymerase II Trigger Loop Mobility: INDIRECT EFFECTS OF Rpb9.	J Biol Chem	2016
25959393	The Histone Chaperones FACT and Spt6 Restrict H2A.Z from Intragenic Locations.	Mol Cell	2015
26186291	Crystal Structure of a Transcribing RNA Polymerase II Complex Reveals a Complete Transcription Bubble.	Mol Cell	2015
26073544	Uncoupling Promoter Opening from Start-Site Scanning.	Mol Cell	2015
24614752	RNAs nonspecifically inhibit RNA polymerase II by preventing binding to the DNA template.	RNA	2014
25764335	Activation and reactivation of the RNA polymerase II trigger loop for intrinsic RNA cleavage and catalysis.	Transcription	2014
25380729	Relationships of RNA polymerase II genetic interactors to transcription start site usage defects and growth in Saccharomyces cerevisiae.	G3 (Bethesda)	2014
24733897	Transcription factors TFIIF and TFIIS promote transcript elongation by RNA polymerase II by synergistic and independent mechanisms.	Proc Natl Acad Sci U S A	2014
23022618	Basic mechanisms of RNA polymerase II activity and alteration of gene expression in Saccharomyces cerevisiae.	Biochim Biophys Acta	2013
24079829	Mechanisms of eukaryotic transcription.	Genome Biol	2013
23994471	Divergent contributions of conserved active site residues to transcription by eukaryotic RNA polymerases I and II.	Cell Rep	2013
23932120	From structure to systems: high-resolution, quantitative genetic analysis of RNA polymerase II.	Cell	2013
22411836	Tfb6, a previously unidentified subunit of the general transcription factor TFIIH, facilitates dissociation of Ssl2 helicase after transcription initiation.	Proc Natl Acad Sci U S A	2012
22493230	Trigger loop dynamics mediate the balance between the transcriptional fidelity and speed of RNA polymerase II.	Proc Natl Acad Sci U S A	2012
22511879	Dissection of Pol II trigger loop function and Pol II activity-dependent control of start site selection in vivo.	PLoS Genet	2012
21777806	Competing for the clamp: promoting RNA polymerase processivity and managing the transition from initiation to elongation.	Mol Cell	2011
20598112	The architecture of RNA polymerase fidelity.	BMC Biol	2010
20720002	A dual interface determines the recognition of RNA polymerase II by RNA capping enzyme.	J Biol Chem	2010
19705827	Iron acquisition and transcriptional regulation.	Chem Rev	2009
19875923	Revealing the hidden relationship between nucleosomes and splicing.	Cell Cycle	2009
19597344	Evolution, biogenesis and function of promoter-associated RNAs.	Cell Cycle	2009
18538653	The RNA polymerase II trigger loop functions in substrate selection and is directly targeted by alpha-amanitin.	Mol Cell	2008
19090964	A bridge to transcription by RNA polymerase.	J Biol	2008
17684230	Polyadenylation site choice in yeast is affected by competition between Npl3 and polyadenylation factor CFI.	RNA	2007
17129781	Structural basis of transcription: role of the trigger loop in substrate specificity and catalysis.	Cell	2006

1 - 50 of 59

Lola de Miguel-Jim??nez

Career Start Year 2012

Number of shared co-authors 1

Sascha H Duttke

College of Veterinary Medicine, Washington State University

Career Start Year 2012

Number of shared co-authors 0

Gonzalo Mill??n-Zambrano

Universidad de Sevilla-CSIC-Universidad Pablo de Olavide

Career Start Year 2011

Number of shared co-authors 2

Maria J Aristizabal

Queen's University

Career Start Year 2011

Number of shared co-authors 6

Tineke L Lenstra

the Netherlands Cancer Institute, Oncode Institute

Career Start Year 2010

Number of shared co-authors 6

Jie Luo

Institute for Systems Biology

Career Start Year 2004

Number of shared co-authors 3

Xenia Pe??ate

Universidad de Sevilla

Career Start Year 2003

Number of shared co-authors 1

Hao Li

School of Public Health, Guangdong Medical University

Career Start Year 2002

Number of shared co-authors 5

Michael J Buck

Jacobs School of Medicine and Biomedical Sciences, University at Buffalo

Career Start Year 2002

Number of shared co-authors 1

Tam??s Fischer

The Australian National University

Career Start Year 2000

Number of shared co-authors 2

Stephen Watt

Wellcome Sanger Institute

Career Start Year 1999

Number of shared co-authors 1

Lars M Steinmetz

Stanford University

Career Start Year 1998

Number of shared co-authors 7

Rachel A Mooney

University of Wisconsin-Madison

Career Start Year 1997

Number of shared co-authors 3

Jason D Lieb

The University of Chicago

Career Start Year 1996

Number of shared co-authors 6

Torben Heick Jensen

Universitetsbyen 81, Aarhus University

Career Start Year 1995

Number of shared co-authors 1

Vishwanath R Iyer

Indian Institute of Technology Bombay

Career Start Year 1995

Number of shared co-authors 4

Minkyu Kim

University of California san francisco

Career Start Year 1995

Number of shared co-authors 4

Oliver J Rando

University of Massachusetts Chan Medical School

Career Start Year 1994

Number of shared co-authors 3

Timothy R Hughes

University of Toronto

Career Start Year 1992

Number of shared co-authors 5

Sebasti??n Ch??vez

Universidad de Sevilla

Career Start Year 1991

Number of shared co-authors 2

Jesper Q Svejstrup

Panum Institute, University of Copenhagen

Career Start Year 1990

Number of shared co-authors 6

Erin K O'Shea

Howard Hughes Medical Institute

Career Start Year 1989

Number of shared co-authors 2

Hiten D Madhani

University of California san francisco

Career Start Year 1986

Number of shared co-authors 4

David T Auble

University of Virginia

Career Start Year 1986

Number of shared co-authors 2

James T Kadonaga

University of California

Career Start Year 1983

Number of shared co-authors 1

Steven Hahn

Fred Hutchinson Cancer Center

Career Start Year 1983

Number of shared co-authors 5

Danny Reinberg

HHMI/NYU Langone School of Medicine

Career Start Year 1980

Number of shared co-authors 3

Jef D Boeke

Institute for Systems Genetics, NYU School of Medicine

Career Start Year 1978

Number of shared co-authors 8

Steven Henikoff

Fred Hutchinson Cancer Center

Career Start Year 1974

Number of shared co-authors 0

Jack F Greenblatt

College Street, University of Toronto

Career Start Year 1969

Number of shared co-authors 8

row(s) 1 - 30 of 30

Chenxi Qiu

Harvard Medical School

Co-authored papers 9

Huiyan Jin

Texas A&M University, College Station

Co-authored papers 9

Roger D Kornberg

Stanford University

Co-authored papers 7

Mark F Leppert

University of Utah

Co-authored papers 3

Leung K Tang

Texas A&M University, College Station

Co-authored papers 3

Stephen M Prescott

Co-authored papers 2

Ralph E Davis

Stanford University School of Medicine

Co-authored papers 2

Benjamin A Garcia

University of Pennsylvania

Co-authored papers 2

Shuyi Wang

Fudan University

Co-authored papers 1

Hannes Braberg

University of California San Francisco

Co-authored papers 1

Philip J Robinson

College of Medical Veterinary and Life Sciences, University of Glasgow

Co-authored papers 1

Christopher D Lima

Howard Hughes Medical Institute, Memorial Sloan Kettering Cancer Center

Co-authored papers 1

Richard P Metz

Co-authored papers 1

Philip C Andrews

Sydney Children's Hospital, University of New South Wales

Co-authored papers 1

John S Mattick

Australia UNSW RNA Institute

Co-authored papers 1

Pengfei Liu

Co-authored papers 1

Shigeki Nagai

Stanford University School of Medicine

Co-authored papers 1

Nevan J Krogan (CM4AI)

University of California San Francisco

Co-authored papers 1

Jay A Tischfield

Co-authored papers 1

Charles D Johnson

Co-authored papers 1

Kenneth D Westover

University of Texas Southwestern Medical Center

Co-authored papers 1

Joy Jayaseelan

Baylor College of Medicine

Co-authored papers 1

David A Bushnell

Stanford University

Co-authored papers 1

Michael F Wangler

Baylor College of Medicine

Co-authored papers 1

Christine Guthrie

University of California san francisco

Co-authored papers 1

Jeffrey A Ranish

Institute for Systems Biology

Co-authored papers 1

Michael Feig

Michigan State University

Co-authored papers 1

Christopher C Ebmeier

University of Colorado

Co-authored papers 1

Robert Landick

University of Wisconsin-Madison

Co-authored papers 1

Albin Sandelin

University of Copenhagen

Co-authored papers 1

1 - 30

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