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Author Details

Jose M Duarte
University of California San Diego
2000
42
25
Andrej Sali (CM4AI)
PMIDPaper TitleJournal TitlePublished Year
36420884RCSB Protein Data Bank (RCSB.org): delivery of experimentally-determined PDB structures alongside one million computed structure models of proteins from artificial intelligence/machine learning.Nucleic Acids Res2023
36738985RCSB Protein Data Bank: Efficient Searching and Simultaneous Access to One Million Computed Structure Models Alongside the PDB Structures Enabled by Architectural Advances.J Mol Biol2023
34676613RCSB Protein Data Bank: Celebrating 50â¿¿years of the PDB with new tools for understanding and visualizing biological macromolecules in 3D.Protein Sci2022
35801924Exploring protein symmetry at the RCSB Protein Data Bank.Emerg Top Life Sci2022
35543462RCSB Protein Data Bank 1D3D module: displaying positional features on macromolecular assemblies.Bioinformatics2022
36291635Protein Data Bank: A Comprehensive Review of 3D Structure Holdings and Worldwide Utilization by Researchers, Educators, and Students.Biomolecules2022
35026162Simplified quality assessment for small-molecule ligands in the Protein Data Bank.Structure2022
34864908RCSB Protein Data Bank: improved annotation, search and visualization of membrane protein structures archived in the PDB.Bioinformatics2022
33211854RCSB Protein Data Bank: powerful new tools for exploring 3D structures of biological macromolecules for basic and applied research and education in fundamental biology, biomedicine, biotechnology, bioengineering and energy sciences.Nucleic Acids Res2021
33313665RCSB Protein Data Bank 1D tools and services.Bioinformatics2021
33186584RCSB Protein Data Bank: Architectural Advances Towards Integrated Searching and Efficient Access to Macromolecular Structure Data from the PDB Archive.J Mol Biol2021
31531901RCSB Protein Data Bank: Enabling biomedical research and drug discovery.Protein Sci2020
32639954Real time structural search of the Protein Data Bank.PLoS Comput Biol2020
30357411RCSB Protein Data Bank: biological macromolecular structures enabling research and education in fundamental biology, biomedicine, biotechnology and energy.Nucleic Acids Res2019
31589784Small angle X-ray scattering-assisted protein structure prediction in CASP13 and emergence of solution structure differences.Proteins2019
31374138Assessment of protein assembly prediction in CASP13.Proteins2019
30735498BioJava 5: A community driven open-source bioinformatics library.PLoS Comput Biol2019
29067736RCSB Protein Data Bank: Sustaining a living digital data resource that enables breakthroughs in scientific research and biomedical education.Protein Sci2018
29864163Investigation of protein quaternary structure via stoichiometry and symmetry information.PLoS One2018
29850778NGL viewer: web-based molecular graphics for large complexes.Bioinformatics2018
30201776Synthetic circuits reveal how mechanisms of gene regulatory networks constrain evolution.Mol Syst Biol2018
29708963Automated evaluation of quaternary structures from protein crystals.PLoS Comput Biol2018
29071742Assessment of protein assembly prediction in CASP12.Proteins2018
27794042The RCSB protein data bank: integrative view of protein, gene and 3D structural information.Nucleic Acids Res2017
28362865Towards an efficient compression of 3D coordinates of macromolecular structures.PLoS One2017
29254494Mapping genetic variations to three-dimensional protein structures to enhance variant interpretation: a proposed framework.Genome Med2017
28803463Bacterial Microcolonies in Gel Beads for High-Throughput Screening of Libraries in Synthetic Biology.ACS Synth Biol2017
28574982MMTF-An efficient file format for the transmission, visualization, and analysis of macromolecular structures.PLoS Comput Biol2017
26508758Understanding the fabric of protein crystals: computational classification of biological interfaces and crystal contacts.Bioinformatics2016
25326082A PDB-wide, evolution-based assessment of protein-protein interfaces.BMC Struct Biol2014
24134166An analysis of oligomerization interfaces in transmembrane proteins.BMC Struct Biol2013
23259833Protein interface classification by evolutionary analysis.BMC Bioinformatics2012
21471016CMView: interactive contact map visualization and analysis.Bioinformatics2011
21575214The structural impact of cancer-associated missense mutations in oncogenes and tumor suppressors.Mol Cancer2011
20624717PDBWiki: added value through community annotation of the Protein Data Bank.Database (Oxford)2010
20507547Optimal contact definition for reconstruction of contact maps.BMC Bioinformatics2010
19713097Designing evolvable libraries using multi-body potentials.Curr Opin Biotechnol2009
19997489Defining an essence of structure determining residue contacts in proteins.PLoS Comput Biol2009
19063740Residue contact-count potentials are as effective as residue-residue contact-type potentials for ranking protein decoys.BMC Struct Biol2008
16962739Gene expression profiling studies on Caenorhabditis elegans dystrophin mutants dys-1(cx-35) and dys-1(cx18).Genomics2006
15057822Genome sequence of the Brown Norway rat yields insights into mammalian evolution.Nature2004
10594231Genetic characterization of a new thermotolerant Bacillus licheniformis strain.Curr Microbiol2000
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Collaborators

The State University of New Jersey
Co-authored papers 19
The State University of New Jersey
Co-authored papers 13
The State University of New Jersey
Co-authored papers 10
The State University of New Jersey
Co-authored papers 9
University of California San Diego
Co-authored papers 9
The State University of New Jersey
Co-authored papers 8
The State University of New Jersey
Co-authored papers 8
University of California
Co-authored papers 8
The State University of New Jersey
Co-authored papers 8
The State University of New Jersey
Co-authored papers 8
University of California
Co-authored papers 8
University of California San Diego
Co-authored papers 7
The State University of New Jersey
Co-authored papers 7
University of California San Diego
Co-authored papers 7
The State University of New Jersey
Co-authored papers 7
The State University of New Jersey
Co-authored papers 7
University of California San Diego
Co-authored papers 7
University of California San Diego
Co-authored papers 7
The State University of New Jersey
Co-authored papers 7
University of California
Co-authored papers 6
The State University of New Jersey
Co-authored papers 5
The State University of New Jersey
Co-authored papers 5
The State University of New Jersey
Co-authored papers 4
The State University of New Jersey
Co-authored papers 4
The State University of New Jersey
Co-authored papers 4
The State University of New Jersey
Co-authored papers 4
University of California
Co-authored papers 4
University of Naples Federico II
Co-authored papers 4
University of California San Francisco
Co-authored papers 4
The State University of New Jersey
Co-authored papers 4