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Author Details

Robyn M Kaake
J. David Gladstone Institutes
2010
31
21
Trey Ideker (CM4AI)
PMIDPaper TitleJournal TitlePublished Year
36747776Structure and dynamics of the essential endogenous mycobacterial polyketide synthase Pks13.bioRxiv2023
37865089De novo protein identification in mammalian sperm using in situ cryoelectron tomography and AlphaFold2 docking.Cell2023
37758692Proteomic and genetic analyses of influenza A viruses identify pan-viral host targets.Nat Commun2023
36782050Structure and dynamics of the essential endogenous mycobacterial polyketide synthase Pks13.Nat Struct Mol Biol2023
35013567From systems to structure - using genetic data to model protein structures.Nat Rev Genet2022
33464917Proteomic Approaches to Study SARS-CoV-2 Biology and COVID-19 Pathology.J Proteome Res2021
34646016Systems-level effects of allosteric perturbations to a model molecular switch.Nature2021
34389466Characterization of an A3G-Vif<sub>HIV-1</sub>-CRL5-CBFβ Structure Using a Cross-linking Mass Spectrometry Pipeline for Integrative Modeling of Host-Pathogen Complexes.Mol Cell Proteomics2021
34349018Protein interaction landscapes revealed by advanced in vivo cross-linking-mass spectrometry.Proc Natl Acad Sci U S A2021
32353859A SARS-CoV-2 protein interaction map reveals targets for drug repurposing.Nature2020
32060427A systems approach to infectious disease.Nat Rev Genet2020
33060197Comparative host-coronavirus protein interaction networks reveal pan-viral disease mechanisms.Science2020
32719457Structural basis of CD4 downregulation by HIV-1 Nef.Nat Struct Mol Biol2020
32645325The Global Phosphorylation Landscape of SARS-CoV-2 Infection.Cell2020
30550789Protein Interaction Mapping Identifies RBBP6 as a Negative Regulator of Ebola Virus Replication.Cell2018
30185875EpCAM homo-oligomerization is not the basis for its role in cell-cell adhesion.Sci Rep2018
28724793A BAG3 chaperone complex maintains cardiomyocyte function during proteotoxic stress.JCI Insight2017
28475896The RNA Exosome Syncs IAV-RNAPII Transcription to Promote Viral Ribogenesis and Infectivity.Cell2017
25823605Synthesis of two new enrichable and MS-cleavable cross-linkers to define protein-protein interactions by mass spectrometry.Org Biomol Chem2015
26421679Ty3 Retrotransposon Hijacks Mating Yeast RNA Processing Bodies to Infect New Genomes.PLoS Genet2015
24423446Characterizing the dynamics of proteasome complexes by proteomics approaches.Antioxid Redox Signal2014
25253489A new in vivo cross-linking mass spectrometry platform to define protein-protein interactions in living cells.Mol Cell Proteomics2014
25225332RNA binding and core complexes constitute the U-insertion/deletion editosome.Mol Cell Biol2014
23981301Combining docking site and phosphosite predictions to find new substrates: identification of smoothelin-like-2 (SMTNL2) as a c-Jun N-terminal kinase (JNK) substrate.Cell Signal2013
22474085Mapping the protein interaction network of the human COP9 signalosome complex using a label-free QTAX strategy.Mol Cell Proteomics2012
23000173Signal-induced disassembly of the SCF ubiquitin ligase complex by Cdc48/p97.Mol Cell2012
21543789Oxidative stress-mediated regulation of proteasome complexes.Mol Cell Proteomics2011
20170199Characterization of cell cycle specific protein interaction networks of the yeast 26S proteasome complex by the QTAX strategy.J Proteome Res2010
20472459Selective enrichment and identification of azide-tagged cross-linked peptides using chemical ligation and mass spectrometry.J Am Soc Mass Spectrom2010
20445003Profiling of protein interaction networks of protein complexes using affinity purification and quantitative mass spectrometry.Mol Cell Proteomics2010
20865152Computational prediction and experimental verification of new MAP kinase docking sites and substrates including Gli transcription factors.PLoS Comput Biol2010
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Collaborators

Nevan J Krogan (CM4AI)
University of California San Francisco
Co-authored papers 17
Lan Huang
University of California Irvine
Co-authored papers 15
Andrej Sali (CM4AI)
University of California San Francisco
Co-authored papers 8
Hannes Braberg
University of California San Francisco
Co-authored papers 5
Gwendolyn M Jang
Gladstone Institute of Data Science and Biotechnology, J. David Gladstone Institutes
Co-authored papers 5
Danielle L Swaney
J. David Gladstone Institutes
Co-authored papers 5
Kelsey M Haas
J. David Gladstone Institutes
Co-authored papers 5
Jyoti Batra
J. David Gladstone Institutes
Co-authored papers 5
Clinton Yu
University of California Irvine
Co-authored papers 5
Ruth H??ttenhain
Quantitative Biosciences Institute (QBI), University of California san francisco
Co-authored papers 5
Xiaorong Wang
University of California Irvine
Co-authored papers 5
Ignacia Echeverria
University of California san francisco
Co-authored papers 5
Jiewei Xu
Quantitative Biosciences Institute (QBI), University of California san francisco
Co-authored papers 4
Manon Eckhardt
Quantitative Biosciences Institute (QBI), University of California san francisco
Co-authored papers 4
Veronica V Rezelj
Quantitative Biosciences Institute (QBI) Coronavirus Research Group (QCRG)
Co-authored papers 4
Tanja Kortemme
University of California san francisco
Co-authored papers 4
Adolfo Garc??a-Sastre
Icahn School of Medicine at Mount Sinai
Co-authored papers 4
Mehdi Bouhaddou
J. David Gladstone Institutes
Co-authored papers 4
Michael J McGregor
J. David Gladstone Institutes
Co-authored papers 4
Robert M Stroud
University of California San Francisco
Co-authored papers 4
Margaret Soucheray
J. David Gladstone Institutes
Co-authored papers 4
Scott D Rychnovsky
University of California irvine
Co-authored papers 4
Oren S Rosenberg
University of California san francisco
Co-authored papers 4
Brian K Shoichet
Department of Pharmaceutical Chemistry, University of California san francisco
Co-authored papers 4
Marco Vignuzzi
Quantitative Biosciences Institute (QBI) Coronavirus Research Group (QCRG)
Co-authored papers 4
Kris M White
Quantitative Biosciences Institute (QBI) Coronavirus Research Group (QCRG)
Co-authored papers 4
Judd F Hultquist
Northwestern University Feinberg School of Medicine
Co-authored papers 4
Kevan M Shokat
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Danish Memon
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Release 1.2