Vincent B. Chen

Duke University — United States

Materials Science · Physical Sciences

19h-index53.0kcitations28works5.02yr avg
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Research Topics

Enzyme Structure and Function(18), Protein Structure and Dynamics(15), RNA and protein synthesis mechanisms(10), Advanced Electron Microscopy Techniques and Applications(5), Computational Drug Discovery Methods(3)

Publications28 total

Categorizing prediction modes within low-pLDDT regions of <i>AlphaFold</i> 2 structures: near-predictive, pseudostructure and barbed wire
Acta Crystallographica Section D Structural Biology·2025· 2 citedOpen Access
Categorizing prediction modes within low-pLDDT regions of AlphaFold2 structures
2025Open Access
RNAprecis: Prediction of full-detail RNA conformation from the experimentally best-observed sparse parameters
2025· 1 citedOpen Access
Outcomes of the EMDataResource cryo-EM Ligand Modeling Challenge
Nature Methods·2024· 17 citedOpen Access
Structures of the DarR transcription regulator reveal unique modes of second messenger and DNA binding
Nature Communications·2023· 10 citedOpen Access
The bad and the good of trends in model building and refinement for sparse-data regions: pernicious forms of overfitting versus good new tools and predictions
Acta Crystallographica Section D Structural Biology·2023· 6 citedOpen Access
Improving SARS-CoV-2 structures: Peer review by early coordinate release
Biophysical Journal·2021· 27 citedOpen Access
<i>CERES</i>: a cryo-EM re-refinement system for continuous improvement of deposited models
Acta Crystallographica Section D Structural Biology·2020· 22 citedOpen Access
MolProbity: all-atom contacts and structure validation for proteins and nucleic acids
UNC Libraries·2020Open Access
New tools in MolProbity validation: CaBLAM for CryoEM backbone, UnDowser to rethink “waters,” and NGL Viewer to recapture online 3D graphics
Protein Science·2019· 184 citedOpen Access
Macromolecular structure determination using X-rays, neutrons and electrons: recent developments in <i>Phenix</i>
Acta Crystallographica Section D Structural Biology·2019· 7.1k citedOpen Access
Assessment of detailed conformations suggests strategies for improving cryoEM models: Helix at lower resolution, ensembles, pre-refinement fixups, and validation at multi-residue length scale
Journal of Structural Biology·2018· 25 cited
Caloric Restriction Engages Hepatic RNA Processing Mechanisms in Rhesus Monkeys
Cell Metabolism·2018· 90 citedOpen Access
Model validation: local diagnosis, correction and when to quit
Acta Crystallographica Section D Structural Biology·2018· 43 citedOpen Access
MolProbity: More and better reference data for improved all‐atom structure validation
Protein Science·2017· 4.7k citedOpen Access
Hepatic Metabolic Reprogramming by Caloric Restriction in Rhesus Monkeys
The FASEB Journal·2017
MolProbity for the masses–of data
Journal of Biomolecular NMR·2015· 63 citedOpen Access
Probing Conformational Changes in Human DNA Topoisomerase IIα by Pulsed Alkylation Mass Spectrometry
Journal of Biological Chemistry·2012· 8 citedOpen Access
Graphical tools for macromolecular crystallography in<i>PHENIX</i>
Journal of Applied Crystallography·2012· 170 citedOpen Access
Use of knowledge-based restraints in <i>phenix.refine</i> to improve macromolecular refinement at low resolution
Acta Crystallographica Section D Biological Crystallography·2012· 268 citedOpen Access
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Frequent Co-authors

Jane S. Richardson(21), David Richardson(18), Christopher J. Williams(12), Nigel W. Moriarty(9), Paul D. Adams(8), Pavel V. Afonine(8), Jeffrey J. Headd(8), Michael G. Prisant(7), Gary J. Kapral(6), Randy J. Read(5), Ian Davis(4), Nathaniel Echols(4), Ralf W. Grosse‐Kunstleve(4), Airlie J. McCoy(4), Thomas C. Terwilliger(4), W.B. Arendall(4), Lizbeth L. Videau(4), G. Bunkóczi(3), Li‐Wei Hung(3), Robert D. Oeffner(3)