🏆 Finalist — NIH Data Sharing Index (“S-Index”) Challenge

Helen M. Berman

Rutgers, The State University of New Jersey

ORCID: 0000-0002-3337-0660

Also affiliated with University of Southern California

Materials ScienceBiochemistry, 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 1%percentile
101Author DataRank

Indexed papers

31in pilot corpus
datarank_citation_only_1hop_v6· scope data_onlyMethodology
Why this DataRank?

An author's DataRank is the sum of the DataRanks of all 31 indexed papers attributed to them. A prolific author with many moderate-impact papers can outrank one with a single high-impact paper.

Author scores recompute whenever paper DataRanks are refreshed, so this number lags the underlying paper scores by at most one batch run.

Read the full methodology →

Top data-sharing exemplar

The highest-impact dataset this researcher has shared, ranked by DataRank — the single contribution doing the most to lift their data-sharing standing.

The Protein Data Bank

Nucleic Acids Research(2000)10.1093/nar/28.1.235
Top 1%
19.0DataRank
Top 1%40016 citations

Helen M. Berman

Papers

Driven by 47 papers — median percentile 77. Top paper: “The Protein Data Bank”.

The Protein Data Bank

Nucleic Acids Research(2000)10.1093/nar/28.1.235
Top 1%
19.0DataRank
Top 1%40016 citations

Helen M. Berman

The Protein Data Bank

Acta Crystallographica Section D Biological Crystallography(2002)10.1107/s0907444902003451
Top 1%
12.6DataRank
Top 1%2640 citations

Tammy Battistuz, T. N. Bhat, Wolfgang F. Bluhm, Philip E. Bourne, Kyle Burkhardt +18 more

[30] Macromolecular crystallographic information file

Methods in Enzymology(1997)10.1016/s0076-6879(97)77032-0
Top 1%
11.9DataRank
Top 1%177 citations

Helen M. Berman, Brian McMahon, Keith D. Watenpaugh, Paula M.D. Fitzgerald, Brian T. McMahon +3 more

The RCSB Protein Data Bank: new resources for research and education

Nucleic Acids Research(2012)10.1093/nar/gks1200
Top 1%
10.3DataRank
Top 1%537 citations

Chunxiao Bi, Wolfgang F. Bluhm, Cole H. Christie, Dimitris Dimitropoulos, Shuchismita Dutta +13 more

The RCSB Protein Data Bank: views of structural biology for basic and applied research and education

Nucleic Acids Research(2014)10.1093/nar/gku1214
Top 1%
10.2DataRank
Top 1%538 citations

Andreas Prlić, Chunxiao Bi, Wolfgang F. Bluhm, Cole H. Christie, Shuchismita Dutta +12 more

The Protein Data Bank and the challenge of structural genomics.

Nature Structural Biology(2000)10.1038/80734
Top 2%
8.2DataRank
Top 2%580 citations

T. N. Bhat, Philip E. Bourne, Zukang Feng, Helge Weissig, John Westbrook +3 more

The Protein Data Bank, 1999–

International Tables for Crystallography(2006)10.1107/97809553602060000722
Top 4%
5.6DataRank
Top 4%145 citations

T. N. Bhat, Helen M. Berman, John Westbrook, Zukang Feng, Gary L. Gilliland +4 more

Large Macromolecular Complexes in the Protein Data Bank: A Status Report

Structure(2005)10.1016/j.str.2005.01.008
N/A
5.1DataRank · unranked
81 citations

Helen M. Berman, Shuchismita Dutta

Protein Data Bank: A Comprehensive Review of 3D Structure Holdings and Worldwide Utilization by Researchers, Educators, and Students

Biomolecules(2022)10.3390/biom12101425
Top 8%
2.6DataRank
Top 8%133 citations

Helen M. Berman, José M. Duarte, Zukang Feng, Justin W. Flatt, Brian P. Hudson +13 more

Outcome of a Workshop on Archiving Structural Models of Biological Macromolecules

Structure(2006)10.1016/j.str.2006.06.005
N/A
2.5DataRank · unranked
70 citations

Stephen K. Burley, Wah Chiu, Andrej Sali, Alexei Adzhubei, Philip E. Bourne +28 more

The Research Collaboratory for Structural Bioinformatics Protein Data Bank

Comprehensive Medicinal Chemistry II(2007)10.1016/b0-08-045044-x/00090-0
Top 10%
2.2DataRank
Top 10%24 citations

N. Deshpande, Q. Zhang, J.L. Flippen-Anderson, Philip E. Bourne, Wolfgang F. Bluhm +1 more

PDBx/mmCIF Ecosystem: Foundational Semantic Tools for Structural Biology

Journal of Molecular Biology(2022)10.1016/j.jmb.2022.167599
Top 10%
2.1DataRank
Top 10%95 citations

Jasmine Young, Chenghua Shao, Zukang Feng, Vladimir Guranović, Catherine L. Lawson +17 more

The Protein Data Bank

Protein Structure(2003)10.1201/9780203911327.ch14
Top 12%
1.7DataRank
Top 12%33 citations

John Westbrook, Christine Zardecki, Helen M. Berman, Philip E. Bourne

The Nucleic Acid Knowledgebase: a new portal for 3D structural information about nucleic acids

Nucleic Acids Research(2023)10.1093/nar/gkad957
Top 13%
1.6DataRank
Top 13%61 citations

Helen M. Berman, Li Chen, Brinda Vallat, Craig L. Zirbel, Catherine L. Lawson

The Protein Data Bank: A Case Study in Management of Community Data

Current Proteomics(2004)10.2174/1570164043488252
Top 13%
1.5DataRank
Top 13%18 citations

John Westbrook, Helen M. Berman, Philip E. Bourne

Evolving data standards for cryo-EM structures

Structural Dynamics(2020)10.1063/1.5138589
Top 14%
1.5DataRank
Top 14%38 citations

Helen M. Berman, Wah Chiu, Catherine L. Lawson

Realism about PDB

Nature Biotechnology(2007)10.1038/nbt0807-845
N/A
1.5DataRank · unranked
19 citations

Kim Henrick, Haruki Nakamura, Philip E. Bourne, John Westbrook, John L. Markley +1 more

Announcing the worldwide Protein Data Bank

Nature Structural & Molecular Biology(2003)10.1038/nsb1203-980
N/A
1.2DataRank · unranked
3218 citations

Kim Henrick, Haruki Nakamura, Helen M. Berman

New system for archiving integrative structures

Acta Crystallographica Section D Structural Biology(2021)10.1107/s2059798321010871
Top 17%
1.2DataRank
Top 17%43 citations

Benjamin Webb, Maryam Fayazi, Serban Voinea, Hongsuda Tangmunarunkit, Sai J. Ganesan +6 more

The RCSB Protein Data Bank: redesigned web site and web services

Nucleic Acids Research(2010)10.1093/nar/gkq1021
N/A
0.976DataRank · unranked
670 citations

C. Bi, Benjamin Yukich, Peter W. Rose, Bojan Beran, Bi Chen +12 more

How the Protein Data Bank changed biology: An introduction to the JBC Reviews thematic series, part 1

Journal of Biological Chemistry(2021)10.1016/j.jbc.2021.100608
Top 23%
0.887DataRank
Top 23%32 citations

Lila M. Gierasch, Helen M. Berman

Outcomes of the EMDataResource cryo-EM Ligand Modeling Challenge

Nature Methods(2024)10.1038/s41592-024-02321-7
Top 23%
0.871DataRank
Top 23%18 citations

Andriy Kryshtafovych, Grigore Pintilie, S.K. Burley, Jiri Cerny, Vincent B. Chen +76 more

RCSB PDB Mobile : iOS and Android mobile apps to provide data access and visualization to the RCSB Protein Data Bank

Bioinformatics(2014)10.1093/bioinformatics/btu596
N/A
0.850DataRank · unranked
16 citations

Chunxiao Bi, Cole H. Christie, Kyle Pang, Andreas Prlić, Takanori Nakane +7 more

DNAproDB: an updated database for the automated and interactive analysis of protein–DNA complexes

Nucleic Acids Research(2024)10.1093/nar/gkae970
Top 24%
0.848DataRank
Top 24%38 citations

Ari S Cohen, Jared M. Sagendorf, Helen M. Berman, Remo Rohs, Raktim Mitra

Insights from 20 years of the Molecule of the Month

Biochemistry and Molecular Biology Education(2020)10.1002/bmb.21360
Top 28%
0.713DataRank
Top 28%23 citations

Christine Zardecki, Helen M. Berman, S.K. Burley, David S. Goodsell

Developing Community Resources for Nucleic Acid Structures

Life(2022)10.3390/life12040540
Top 28%
0.702DataRank
Top 28%19 citations

Catherine L. Lawson, Bohdan Schneider, Helen M. Berman

Quality assurance for the query and distribution systems of the RCSB Protein Data Bank

Database(2011)10.1093/database/bar003
Top 31%
0.642DataRank
Top 31%8 citations

C. Bi, C. Shah, Benjamin Yukich, Wolfgang F. Bluhm, Bojan Beran +10 more

ModelCIF: An Extension of PDBx/mmCIF Data Representation for Computed Structure Models

Journal of Molecular Biology(2023)10.1016/j.jmb.2023.168021
Top 31%
0.630DataRank
Top 31%22 citations

Gerardo Tauriello, Stefan Bienert, Juergen Haas, Benjamin Webb, Augustin Žídek +20 more

The evolution of the RCSB Protein Data Bank website

WIREs Computational Molecular Science(2011)10.1002/wcms.57
Top 32%
0.617DataRank
Top 32%11 citations

Bojan Beran, Chunxiao Bi, Wolfgang F. Bluhm, Dimitris Dimitropoulos, Zukang Feng +11 more

RCSB Protein Data Bank: Delivering integrative structures alongside experimental structures and computed structure models

Nucleic Acids Research(2025)10.1093/nar/gkaf1187
Top 40%
0.483DataRank
Top 40%17 citations

Yana Rose, Dennis W. Piehl, José M. Duarte, Sebastian Bittrich, Chunxiao Bi +21 more

PDB-IHM: A System for Deposition, Curation, Validation, and Dissemination of Integrative Structures

Journal of Molecular Biology(2025)10.1016/j.jmb.2025.168963
Top 43%
0.439DataRank
Top 43%12 citations

Benjamin Webb, Arthur O. Zalevsky, Hongsuda Tangmunarunkit, Monica Sekharan, Serban Voinea +11 more

The RCSB Protein Data Bank: site functionality and bioinformatics use cases

NCI Nature Pathway Interaction Database(2011)10.1038/pid.2011.1
N/A
0.434DataRank · unranked
5 citations

Wolfgang F. Bluhm, Bojan Beran, Chunxiao Bi, Dimitris Dimitropoulos, David S. Goodsell +7 more

How the Protein Data Bank changed biology: An introduction to the JBC Reviews thematic series, part 2

Journal of Biological Chemistry(2021)10.1016/j.jbc.2021.100748
Top 43%
0.428DataRank
Top 43%7 citations

Helen M. Berman, Lila M. Gierasch

IHMCIF: An Extension of the PDBx/mmCIF Data Standard for Integrative Structure Determination Methods

Journal of Molecular Biology(2024)10.1016/j.jmb.2024.168546
Top 46%
0.395DataRank
Top 46%11 citations

Benjamin Webb, John Westbrook, Thomas D. Goddard, Christian A. Hanke, Andrea Graziadei +30 more

RNAproDB: A Webserver and Interactive Database for Analyzing Protein–RNA Interactions

Journal of Molecular Biology(2025)10.1016/j.jmb.2025.169012
Top 48%
0.377DataRank
Top 48%8 citations

Ari S Cohen, Wei Yu Tang, Hirad Hosseini, Yongchan Hong, Helen M. Berman +2 more

Outcomes of the 2019 EMDataResource model challenge: validation of cryo-EM models at near-atomic resolution

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.06.12.147033
Top 48%
0.375DataRank
Top 48%7 citations

Andriy Kryshtafovych, Paul D. Adams, Pavel V. Afonine, Matthew L. Baker, Benjamin A. Barad +49 more

ModelCIF: An extension of PDBx/mmCIF data representation for computed structure models

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.12.06.518550
Top 63%
0.216DataRank
Top 63%3 citations

Gerardo Tauriello, Stefan Bienert, Juergen Haas, Benjamin Webb, Augustin Žídek +20 more

The macromolecular CIF dicitionary

Acta Crystallographica Section A Foundations of Crystallography(1993)10.1107/s0108767378088364
N/A
0.191DataRank · unranked
1 citations

P. M. D. Fitzgerald, Keith David Watenpaugh, Helen M. Berman, Philip E. Bourne, Keith D. Watenpaugh

Protein Structures: From Famine to Feast

American Scientist(2002)10.1511/2002.27.350
N/A
0.104DataRank · unranked
1 citations

Helen M. Berman, David S. Goodsell, Philip E. Bourne

New targets and procedures for validating the valence geometry of nucleic acid structures

Nucleic Acids Research(2025)10.1093/nar/gkaf1335
N/A
0DataRank · unranked
2 citations

Robert A. Nicholls, Dariusz Brzeziński, Helen M. Berman, Mirosław Gilski, Robbie P. Joosten +10 more

Electron microscopy holdings of the Protein Data Bank: the impact of the resolution revolution, new validation tools, and implications for the future

Biophysical Reviews(2022)10.1007/s12551-022-01013-w
N/A
0DataRank · unranked
46 citations

Helen M. Berman, Wah Chiu, Wei Dai, Justin W. Flatt, Brian P. Hudson +11 more

IHMValidation: Assessment of Integrative Structure Models Deposited to the Protein Data Bank

Journal of Molecular Biology(2025)10.1016/j.jmb.2025.169598
Top 100%
0DataRank
Top 100%0 citations

Brinda Vallat, Benjamin Webb, Hongsuda Tangmunarunkit, Monica Sekharan, Aref Shafaeibejestan +22 more

Archiving Integrative Structural Models

Biophysical Journal(2021)10.1016/j.bpj.2020.11.1702
N/A
0DataRank · unranked
0 citations

Benjamin Webb, John Westbrook, Hongsuda Tangmunarunkit, Serban Voinea, Carl Kesselman +3 more

Open-access data: A cornerstone for artificial intelligence approaches to protein structure prediction

Structure(2021)10.1016/j.str.2021.04.010
N/A
0DataRank · unranked
42 citations

Helen M. Berman, S.K. Burley

Cryo-EM model validation recommendations based on outcomes of the 2019 EMDataResource challenge

Nature Methods(2021)10.1038/s41592-020-01051-w
N/A
0DataRank · unranked
119 citations

Andriy Kryshtafovych, Paul D. Adams, Pavel V. Afonine, Matthew L. Baker, Benjamin A. Barad +49 more

Making fluorescence-based integrative structures and associated kinetic information accessible

Nature Methods(2024)10.1038/s41592-024-02428-x
N/A
0DataRank · unranked
4 citations

John Westbrook, Benjamin Webb, Thomas-Otavio Peulen, Catherine L. Lawson, Andrej Sali +4 more

Outcomes of the EMDataResource Cryo-EM Ligand Modeling Challenge

Research Square(2024)10.21203/rs.3.rs-3864137/v1
N/A
0DataRank · unranked
2 citations

Andriy Kryshtafovych, Grigore Pintilie, S.K. Burley, Jiri Cerny, Vincent Chen +76 more