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Author Details

Roland L Dunbrack
Fox Chase Cancer Center
1989
153
53
Andrej Sali (CM4AI)
PMIDPaper TitleJournal TitlePublished Year
38015557Targeting Dysregulated Ion Channels in Liver Tumors with Venom Peptides.Mol Cancer Ther2024
38079473PAK2 is necessary for myelination in the peripheral nervous system.Brain2024
36300618The protein common assembly database (ProtCAD)-a comprehensive structural resource of protein complexes.Nucleic Acids Res2023
37701412Corrigendum to "Computational design of nanomolar-binding antibodies specific to multiple SARS-CoV-2 variants by engineering a specificity switch of antibody 80R using RosettaAntibodyDesign (RAbD) results in potential generalizable therapeutic antibodies for novel SARS-CoV-2 virus" [Heliyon 9(4) (April 2023) e15032].Heliyon2023
37547017AlphaFold2 models of the active form of all 437 catalytically competent human protein kinase domains.bioRxiv2023
36945596FAM122A ensures cell cycle interphase progression and checkpoint control as a SLiM-dependent substrate-competitive inhibitor to the B55⍺/PP2A phosphatase.bioRxiv2023
37035348Computational design of nanomolar-binding antibodies specific to multiple SARS-CoV-2 variants by engineering a specificity switch of antibody 80R using RosettaAntibodyDesign (RAbD) results in potential generalizable therapeutic antibodies for novel SARS-CoV-2 virus.Heliyon2023
37365936Discriminating physiological from non-physiological interfaces in structures of protein complexes: A community-wide study.Proteomics2023
37095444Candidate variants in DNA replication and repair genes in early-onset renal cell carcinoma patients referred for germline testing.BMC Genomics2023
37430226Correction: Candidate variants in DNA replication and repair genes in early-onset renal cell carcinoma patients referred for germline testing.BMC Genomics2023
37356718Palmitoylation-dependent control of JAK1 kinase signaling governs responses to neuropoietic cytokines and survival in DRG neurons.J Biol Chem2023
36635501Multiplexed screens identify RAS paralogues HRAS and NRAS as suppressors of KRAS-driven lung cancer growth.Nat Cell Biol2023
34643709Kincore: a web resource for structural classification of protein kinases and their inhibitors.Nucleic Acids Res2022
35436326The ERK2-DBP domain opposes pathogenesis of a mouse JAK2V617F-driven myeloproliferative neoplasm.Blood2022
35536216Delineating the RAS Conformational Landscape.Cancer Res2022
35667008Correction to "The Rosetta All-Atom Energy Function for Macromolecular Modeling and Design".J Chem Theory Comput2022
36416208Development and Utility of a PAK1-Selective Degrader.J Med Chem2022
34228733PDBrenum: A webserver and program providing Protein Data Bank files renumbered according to their UniProt sequences.PLoS One2021
33827808Structure of TFIIK for phosphorylation of CTD of RNA polymerase II.Sci Adv2021
32483333Macromolecular modeling and design in Rosetta: recent methods and frameworks.Nat Methods2020
32024829ProtCID: a data resource for structural information on protein interactions.Nat Commun2020
33180672Hiding in plain sight: structure and sequence analysis reveals the importance of the antibody DE loop for antibody-antigen binding.MAbs2020
32365137Better together: Elements of successful scientific software development in a distributed collaborative community.PLoS Comput Biol2020
32374785Multifaceted analysis of training and testing convolutional neural networks for protein secondary structure prediction.PLoS One2020
30680959Interaction of germline variants in a family with a history of early-onset clear cell renal cell carcinoma.Mol Genet Genomic Med2019
31875044A Structurally-Validated Multiple Sequence Alignment of 497 Human Protein Kinase Domains.Sci Rep2019
31342580Assessment of predicted enzymatic activity of α-N-acetylglucosaminidase variants of unknown significance for CAGI 2016.Hum Mutat2019
31307431Protein modeling to assess the pathogenicity of rare variants of SERPINA1 in patients suspected of having Alpha 1 Antitrypsin Deficiency.BMC Med Genet2019
30867294Defining a new nomenclature for the structures of active and inactive kinases.Proc Natl Acad Sci U S A2019
30965224Principles and characteristics of biological assemblies in experimentally determined protein structures.Curr Opin Struct Biol2019
30845191A new clustering and nomenclature for beta turns derived from high-resolution protein structures.PLoS Comput Biol2019
29432160Role of a selecting ligand in shaping the murine γδ-TCR repertoire.Proc Natl Acad Sci U S A2018
30030379Mouse modeling and structural analysis of the p.G307S mutation in human cystathionine β-synthase (<i>CBS</i>) reveal effects on CBS activity but not stability.J Biol Chem2018
30265352Contribution of an unusual CDR2 element of a single domain antibody in ricin toxin binding affinity and neutralizing activity.Protein Eng Des Sel2018
29702641RosettaAntibodyDesign (RAbD): A general framework for computational antibody design.PLoS Comput Biol2018
29448085Plk2 Loss Commonly Occurs in Colorectal Carcinomas but not Adenomas: Relationship to mTOR Signaling.Neoplasia2018
28591715BRCA2, EGFR, and NTRK mutations in mismatch repair-deficient colorectal cancers with MSH2 or MLH1 mutations.Oncotarget2017
28440912Performance of in silico tools for the evaluation of p16INK4a (CDKN2A) variants in CAGI.Hum Mutat2017
28430426The Rosetta All-Atom Energy Function for Macromolecular Modeling and Design.J Chem Theory Comput2017
28125104Modeling and docking of antibody structures with Rosetta.Nat Protoc2017
28494185Functional analysis of rare variants in mismatch repair proteins augments results from computation-based predictive methods.Cancer Biol Ther2017
28370845Benchmarking predictions of allostery in liver pyruvate kinase in CAGI4.Hum Mutat2017
26756794CASP 11 target classification.Proteins2016
27181425Biological function derived from predicted structures in CASP11.Proteins2016
27081927Assessment of template-based modeling of protein structure in CASP11.Proteins2016
27081793Assessment of refinement of template-based models in CASP11.Proteins2016
25384454Issues in interpreting the in vivo activity of Aurora-A.Expert Opin Ther Targets2015
26628682Identifying three-dimensional structures of autophosphorylation complexes in crystals of protein kinases.Sci Signal2015
26485759Systematic evaluation of underlying defects in DNA repair as an approach to case-only assessment of familial prostate cancer.Oncotarget2015
26285240Cancer Signature Investigation: ERBB2 (HER2)-Activating Mutation and Amplification-Positive Breast Carcinoma Mimicking Lung Primary.J Natl Compr Canc Netw2015
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Collaborators

Erica A Golemis
Co-authored papers 12
Jeffrey J Gray
Johns Hopkins University
Co-authored papers 8
Fred E Cohen
University of California san francisco
Co-authored papers 6
Tanja Kortemme
University of California san francisco
Co-authored papers 5
Brian Kuhlman
Co-authored papers 4
Rhiju Das
Stanford University School of Medicine
Co-authored papers 4
Richard Bonneau
Center for Computational Biology (CCB), Flatiron Institute, Simons Foundation
Co-authored papers 4
Jeliazko R Jeliazkov
Co-authored papers 4
J Michael Sauder
Eli Lilly and Co.
Co-authored papers 4
John Moult
Institute for Bioscience and Biotechnology Research
Co-authored papers 4
Pier Luigi Martelli
Department of Pharmacy and Biotechnology, University of Bologna
Co-authored papers 4
David L Wiest
Fox Chase Cancer Center
Co-authored papers 4
David Baker
University of Washington
Co-authored papers 4
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Department of Pharmacy and Biotechnology, University of Bologna
Co-authored papers 4
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Baylor College of Medicine
Co-authored papers 4
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Co-authored papers 3
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Harvard University
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Michael S Pacella
Co-authored papers 3
Hahnbeom Park
Co-authored papers 3
Steven E Brenner
University of California berkeley
Co-authored papers 3
David Jones
The Francis Crick Institute
Co-authored papers 3
Sagar D Khare
The State University of New Jersey
Co-authored papers 3
Ora Schueler-Furman
Co-authored papers 3
Andrej Sali (CM4AI)
University of California San Francisco
Co-authored papers 2
Burkhard Rost
Technical University of Munich (TUM)
Co-authored papers 2
Stephen K Burley
The State University of New Jersey
Co-authored papers 2
Yaoqi Zhou
Co-authored papers 2
Krzysztof Fidelis
University of California davis
Co-authored papers 2
Release 1.2