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Author Details

Karl R Clauser
1991
96
55
PMIDPaper TitleJournal TitlePublished Year
37098922Proteomic Profiling of Extracellular Matrix Components from Patient Metastases Identifies Consistently Elevated Proteins for Developing Nanobodies That Target Primary Tumors and Metastases.Cancer Res2023
37808651Pan-viral ORFs discovery using Massively Parallel Ribosome Profiling.bioRxiv2023
37572790What Can Ribo-Seq, Immunopeptidomics, and Proteomics Tell Us About the Noncanonical Proteome?Mol Cell Proteomics2023
37398281The HLA-II immunopeptidome of SARS-CoV-2.bioRxiv2023
37205492Translation of non-canonical open reading frames as a cancer cell survival mechanism in childhood medulloblastoma.bioRxiv2023
37142057Sensitive, High-Throughput HLA-I and HLA-II Immunopeptidomics Using Parallel Accumulation-Serial Fragmentation Mass Spectrometry.Mol Cell Proteomics2023
37012232Workflow enabling deepscale immunopeptidome, proteome, ubiquitylome, phosphoproteome, and acetylome analyses of sample-limited tissues.Nat Commun2023
37301199HLA-II immunopeptidome profiling and deep learning reveal features of antigenicity to inform antigen discovery.Immunity2023
37292611What can Ribo-seq and proteomics tell us about the non-canonical proteome?bioRxiv2023
35283288TAILS Identifies Candidate Substrates and Biomarkers of ADAMTS7, a Therapeutic Protease Target in Coronary Artery Disease.Mol Cell Proteomics2022
35775490Reversal of viral and epigenetic HLA class I repression in Merkel cell carcinoma.J Clin Invest2022
35236940Cancer proteogenomics: current impact and future prospects.Nat Rev Cancer2022
34663921Unannotated proteins expand the MHC-I-restricted immunopeptidome in cancer.Nat Biotechnol2022
35105607Navigating Critical Challenges Associated with Immunopeptidomics-Based Detection of Proteasomal Spliced Peptide Candidates.Cancer Immunol Res2022
34391888Optimized Liquid and Gas Phase Fractionation Increases HLA-Peptidome Coverage for Primary Cell and Tissue Samples.Mol Cell Proteomics2021
34290406Phenotype, specificity and avidity of antitumour CD8<sup>+</sup> T cells in melanoma.Nature2021
34162890Author Correction: Deep learning boosts sensitivity of mass spectrometry-based immunopeptidomics.Nat Commun2021
34099720Deep learning boosts sensitivity of mass spectrometry-based immunopeptidomics.Nat Commun2021
33879793Suppression of pancreatic ductal adenocarcinoma growth and metastasis by fibrillar collagens produced selectively by tumor cells.Nat Commun2021
33510483Noncanonical open reading frames encode functional proteins essential for cancer cell survival.Nat Biotechnol2021
34146720MS-Based HLA-II Peptidomics Combined With Multiomics Will Aid the Development of Future Immunotherapies.Mol Cell Proteomics2021
34040252PANOPLY: a cloud-based platform for automated and reproducible proteogenomic data analysis.Nat Methods2021
33024965SARS-CoV-2 infected cells present HLA-I peptides from canonical and out-of-frame ORFs.bioRxiv2020
31844290A large peptidome dataset improves HLA class I epitope prediction across most of the human population.Nat Biotechnol2020
31586405MatrisomeDB: the ECM-protein knowledge database.Nucleic Acids Res2020
32004545Dual protease type XIII/pepsin digestion offers superior resolution and overlap for the analysis of histone tails by HX-MS.Methods2020
31484774Proteomic analyses of ECM during pancreatic ductal adenocarcinoma progression reveal different contributions by tumor and stromal cells.Proc Natl Acad Sci U S A2019
30351145Evaluation of Advanced Precursor Determination for Tandem Mass Tag (TMT)-Based Quantitative Proteomics across Instrument Platforms.J Proteome Res2019
31081335Proteomics Standards Initiative Extended FASTA Format.J Proteome Res2019
29472518Mass Spectrometry-Based Proteomics Reveals Potential Roles of NEK9 and MAP2K4 in Resistance to PI3K Inhibition in Triple-Negative Breast Cancers.Cancer Res2018
30205044Proteomics, Post-translational Modifications, and Integrative Analyses Reveal Molecular Heterogeneity within Medulloblastoma Subgroups.Cancer Cell2018
29988108Reproducible workflow for multiplexed deep-scale proteome and phosphoproteome analysis of tumor tissues by liquid chromatography-mass spectrometry.Nat Protoc2018
28122942Comparative Analysis of Mitochondrial N-Termini from Mouse, Human, and Yeast.Mol Cell Proteomics2017
28348404Proteogenomic integration reveals therapeutic targets in breast cancer xenografts.Nat Commun2017
28344315Proteomic characterization of human multiple myeloma bone marrow extracellular matrix.Leukemia2017
28456751Methods, Tools and Current Perspectives in Proteogenomics.Mol Cell Proteomics2017
28749931Quantitative, multiplexed workflow for deep analysis of human blood plasma and biomarker discovery by mass spectrometry.Nat Protoc2017
28658630An Integrative Framework Reveals Signaling-to-Transcription Events in Toll-like Receptor Signaling.Cell Rep2017
28440318Corrigendum: Proteogenomic integration reveals therapeutic targets in breast cancer xenografts.Nat Commun2017
29039416Antibodies to biotin enable large-scale detection of biotinylation sites on proteins.Nat Methods2017
29079793Site-specific identification and quantitation of endogenous SUMO modifications under native conditions.Nat Commun2017
28071719Quantitative proteomic profiling of the extracellular matrix of pancreatic islets during the angiogenic switch and insulinoma progression.Sci Rep2017
28228285Mass Spectrometry Profiling of HLA-Associated Peptidomes in Mono-allelic Cells Enables More Accurate Epitope Prediction.Immunity2017
26450961MitoCarta2.0: an updated inventory of mammalian mitochondrial proteins.Nucleic Acids Res2016
27251275Proteogenomics connects somatic mutations to signalling in breast cancer.Nature2016
27408916Glyco-centric lectin magnetic bead array (LeMBA) - proteomics dataset of human serum samples from healthy, Barrett׳s esophagus and esophageal adenocarcinoma individuals.Data Brief2016
26653538Reproducibility of Differential Proteomic Technologies in CPTAC Fractionated Xenografts.J Proteome Res2016
26163349The extracellular matrix: Tools and insights for the "omics" era.Matrix Biol2016
26631509An Analysis of the Sensitivity of Proteogenomic Mapping of Somatic Mutations and Novel Splicing Events in Cancer.Mol Cell Proteomics2016
26273955Enrichment of Extracellular Matrix Proteins from Tissues and Digestion into Peptides for Mass Spectrometry Analysis.J Vis Exp2015
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McDonnell Genome Institute, Washington University School of Medicine
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University of California San Francisco
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