Craig D. Kaplan

Biochemistry, Genetics and Molecular Biology

Pilot corpus only

This score is computed over theSindex pilot corpus and does not cover the full scientific literature. Scores are relative to papers we have ingested — papers, authors, and institutions outside the pilot are not represented. Methodology.

Top 100%percentile

0Author DataRank

Indexed papers

0in pilot corpus

datarank_citation_only_1hop_v6· scope data_onlyMethodology

Papers

Driven by 27 papers. Top paper: “Organismal benefits of transcription speed control at gene boundaries”.

Organismal benefits of transcription speed control at gene boundaries

EMBO Reports(2020)10.15252/embr.201949315

N/A

1.1DataRank · unranked

45 citations

Maxim Ivanov, Peter Kindgren, Indranil Malik, Axel Thieffry, Peter Brodersen +4 more

Cryo-EM structure of TFIIH/Rad4–Rad23–Rad33 in damaged DNA opening in nucleotide excision repair

Nature Communications(2021)10.1038/s41467-021-23684-x

N/A

0.581DataRank · unranked

47 citations

Yoonjung Shim, Hee Jong Kim, Tingting Zhao, Shrabani Basu, Benjamin A. García +4 more

Germline mutation in POLR2A: a heterogeneous, multi-systemic developmental disorder characterized by transcriptional dysregulation

Human Genetics and Genomics Advances(2020)10.1016/j.xhgg.2020.100014

N/A

0.470DataRank · unranked

22 citations

Payal Arora, Michael M. Khayat, Leah J. Smith, Andrea M. Lewis, Linda Rossetti +19 more

Structure of the Hir histone chaperone complex

Molecular Cell(2024)10.1016/j.molcel.2024.05.031

N/A

0.385DataRank · unranked

12 citations

Mary R. Szurgot, Trevor van Eeuwen, M. Daniel Ricketts, Pratik Basnet, Athena L. Zhang +7 more

Systematic mutagenesis of TFIIH subunit p52/Tfb2 identifies residues required for XPB/Ssl2 subunit function and genetic interactions with TFB6

Journal of Biological Chemistry(2022)10.1016/j.jbc.2022.102433

N/A

0.292DataRank · unranked

6 citations

Jenna K. Rimel, Shrabani Basu, Pratik Basnet, Jie Luo, Krysta L. Engel +7 more

Quantitative analysis of transcription start site selection in Saccharomyces cerevisiae reveals control by DNA sequence, RNA Polymerase II activity, and NTP levels

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.11.09.467992

N/A

0.104DataRank · unranked

1 citations

Irina O. Vvedenskaya, Sing‐Hoi Sze, Bryce E. Nickels, Craig D. Kaplan, Yunye Zhu

Characterization of RNA Polymerase II Trigger Loop Mutations using Molecular Dynamics Simulations and Machine Learning

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.08.11.503690

N/A

0DataRank · unranked

2 citations

Bingbing Duan, Chenxi Qiu, Craig D. Kaplan, Michael Feig, Bercem Dutagaci

Thiolutin has complex effects in vivo but is a direct inhibitor of RNA polymerase II in vitro

Nucleic Acids Research(2023)10.1093/nar/gkad1258

N/A

0DataRank · unranked

17 citations

Payal Arora, Indranil Malik, Amber J. LaPeruta, Emily M. Pavlovic, Scott Ugochukwu +3 more

Characterization of RNA polymerase II trigger loop mutations using molecular dynamics simulations and machine learning

PLoS Computational Biology(2023)10.1371/journal.pcbi.1010999

N/A

0DataRank · unranked

8 citations

Bingbing Duan, Chenxi Qiu, Craig D. Kaplan, Michael Feig, Bercem Dutagaci

Widespread epistasis shapes RNA Polymerase II active site function and evolution

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.02.27.530048

N/A

0DataRank · unranked

5 citations

Chenxi Qiu, Sing‐Hoi Sze, Craig D. Kaplan, Bingbing Duan

Structural basis of transcription: RNA Polymerase II substrate binding and metal coordination at 3.0 Å using a free-electron laser

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.09.22.559052

N/A

0DataRank · unranked

1 citations

Christopher O. Barnes, Simon C. Weiss, Bercem Dutagaci, Chenxi Qiu, Michael Feig +6 more

Structural basis of transcription: RNA polymerase II substrate binding and metal coordination using a free-electron laser

Proceedings of the National Academy of Sciences(2024)10.1073/pnas.2318527121

N/A

0DataRank · unranked

16 citations

Christopher O. Barnes, Simon C. Weiss, Bercem Dutagaci, Chenxi Qiu, Michael Feig +6 more

RNA Polymerase II Activity Control of Gene Expression and Involvement in Disease

Journal of Molecular Biology(2024)10.1016/j.jmb.2024.168770

N/A

0DataRank · unranked

15 citations

Craig D. Kaplan, James C. Kuldell

Quantitative analysis of transcription start site selection reveals control by DNA sequence, RNA polymerase II activity and NTP levels

Nature Structural & Molecular Biology(2024)10.1038/s41594-023-01171-9

N/A

0DataRank · unranked

10 citations

Irina O. Vvedenskaya, Sing‐Hoi Sze, Bryce E. Nickels, Craig D. Kaplan, Yunye Zhu

Transcription start site scanning requires the fungi-specific hydrophobic loop of Tfb3

Nucleic Acids Research(2024)10.1093/nar/gkae805

N/A

0DataRank · unranked

2 citations

Pratik Basnet, Samah Sharmin, Hui Shen, Craig D. Kaplan, Kenji Murakami +1 more

Higher-order epistasis within Pol II trigger loop haplotypes

Genetics(2024)10.1093/genetics/iyae172

N/A

0DataRank · unranked

1 citations

Chenxi Qiu, Steve W. Lockless, Sing-Hoi Sze, Craig D. Kaplan, Bingbing Duan

Higher-order epistasis within Pol II trigger loop haplotypes

bioRxiv (Cold Spring Harbor Laboratory)(2024)10.1101/2024.01.20.576280

N/A

0DataRank · unranked

2 citations

Chenxi Qiu, Steve W. Lockless, Sing‐Hoi Sze, Craig D. Kaplan, Bingbing Duan

FACT weakens the nucleosomal barrier to transcription and preserves its integrity by forming a hexasome-like intermediate

Molecular Cell(2025)10.1016/j.molcel.2025.05.002

N/A

0DataRank · unranked

8 citations

Alex Tong, Li Chen, César Díaz-Celis, Craig D. Kaplan, Gary LeRoy +3 more

Widespread epistasis shapes RNA polymerase II active site function and evolution

Nature Communications(2025)10.1038/s41467-025-63304-6

N/A

0DataRank · unranked

1 citations

Chenxi Qiu, Sing-Hoi Sze, Craig D. Kaplan, Bingbing Duan

Substitutions in RNA-binding protein Hrp1 map a potential interaction surface with the yeast RNA polymerase II elongation complex

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.05.07.652672

N/A

0DataRank · unranked

1 citations

Payal Arora, Craig D. Kaplan, David A. Brow, Moyao Wang

Universal promoter scanning by Pol II during transcription initiation in Saccharomyces cerevisiae

Genome biology(2020)10.1186/s13059-020-02040-0

N/A

0DataRank · unranked

48 citations

Huiyan Jin, Irina O. Vvedenskaya, Jordi Abante Llenas, Tingting Zhao, Indranil Malik +13 more

RNA polymerase II-TFIIE-TFIIH interface functions in transcription start site selection in Saccharomyces cerevisiae

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.11.05.686797

N/A

0DataRank · unranked

0 citations

Yunye Zhu, Irina O. Vvendenskaya, Payal Arora, Staci E. Hammer, Brittany R. McVicar +4 more

A genome-wide copper-sensitized screen identifies novel regulators of mitochondrial cytochrome c oxidase activity

Journal of Biological Chemistry(2021)10.1016/j.jbc.2021.100485

N/A

0DataRank · unranked

15 citations

Aaron T. Griffin, Mohammad Zulkifli, Chenxi Qiu, Craig D. Kaplan, Vishal M. Gohil +1 more

Structure of TFIIH/Rad4-Rad23-Rad33 in damaged DNA opening in Nucleotide Excision Repair

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.01.14.426755

N/A

0DataRank · unranked

4 citations

Yoonjung Shim, Hee Jong Kim, Tingting Zhao, Shrabani Basu, Benjamin A. García +4 more

Thiolutin has complex effects in vivo but is a direct inhibitor of RNA Polymerase II in vitro

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.05.05.442806

N/A

0DataRank · unranked

2 citations

Payal Arora, Indranil Malik, Amber J. LaPeruta, Emily M. Pavlovic, Scott Ugochukwu +3 more

A genome wide copper-sensitized screen identifies novel regulators of mitochondrial cytochrome c oxidase activity

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2020.12.31.424969

N/A

0DataRank · unranked

1 citations

Aaron T. Griffin, Mohammad Zulkifli, Chenxi Qiu, Craig D. Kaplan, Vishal M. Gohil +1 more

Structural visualization of de novo transcription initiation by Saccharomyces cerevisiae RNA polymerase II

Molecular Cell(2022)10.1016/j.molcel.2021.12.020

N/A

0DataRank · unranked

21 citations

Rina Fujiwara, Hee Jong Kim, Pratik Basnet, Yunye Zhu, Jose J. Gorbea Colón +5 more