Proteomics
A ubiquitination cascade regulating the integrated stress response and survival in carcinomas. Cancer Discov. 2022. doi:10.1158/2159-8290.CD-22-1230.
HLA-I immunopeptidome profiling of human cells infected with high-containment enveloped viruses. STAR Protoc. 2022;3(4):101910. doi:10.1016/j.xpro.2022.101910.
In situ cell-type-specific cell-surface proteomic profiling in mice. Neuron. 2022;110(23):3882-3896.e9. doi:10.1016/j.neuron.2022.09.025.
CALR-mutated cells are vulnerable to combined inhibition of the proteasome and the endoplasmic reticulum stress response. Leukemia. 2022. doi:10.1038/s41375-022-01781-0.
Proteogenomic Markers of Chemotherapy Resistance and Response in Triple-Negative Breast Cancer. Cancer Discov. 2022;12(11):2586-2605. doi:10.1158/2159-8290.CD-22-0200.
A genetic model for proximity labelling of the mammalian secretome. Open Biol. 2022;12(8):220149. doi:10.1098/rsob.220149.
Huntingtin turnover: modulation of huntingtin degradation by cAMP-dependent protein kinase A (PKA) phosphorylation of C-HEAT domain Ser2550. Hum Mol Genet. 2022. doi:10.1093/hmg/ddac165.
Transcription factor Acj6 controls dendrite targeting via a combinatorial cell-surface code. Neuron. 2022;110(14):2299-2314.e8. doi:10.1016/j.neuron.2022.04.026.
Reversal of viral and epigenetic HLA class I repression in Merkel cell carcinoma. J Clin Invest. 2022;132(13). doi:10.1172/JCI151666.
Proteomics and Population Biology in the Cardiovascular Health Study (CHS): design of a study with mentored access and active data sharing. Eur J Epidemiol. 2022;37(7):755-765. doi:10.1007/s10654-022-00888-z.
Degradation of GSPT1 causes TP53-independent cell death in leukemia whilst sparing normal hematopoietic stem cells. J Clin Invest. 2022. doi:10.1172/JCI153514.
The Parkinson's disease protein alpha-synuclein is a modulator of processing bodies and mRNA stability. Cell. 2022;185(12):2035-2056.e33. doi:10.1016/j.cell.2022.05.008.
RNF43 G659fs is an oncogenic colorectal cancer mutation and sensitizes tumor cells to PI3K/mTOR inhibition. Nat Commun. 2022;13(1):3181. doi:10.1038/s41467-022-30794-7.
Brain-specific deletion of GIT1 impairs cognition and alters phosphorylation of synaptic protein networks implicated in schizophrenia susceptibility. Mol Psychiatry. 2022. doi:10.1038/s41380-022-01557-z.
Landscape of helper and regulatory antitumour CD4 T cells in melanoma. Nature. 2022;605(7910):532-538. doi:10.1038/s41586-022-04682-5.
A bidirectional switch in the Shank3 phosphorylation state biases synapses toward up- or downscaling. Elife. 2022;11. doi:10.7554/eLife.74277.
Cancer proteogenomics: current impact and future prospects. Nat Rev Cancer. 2022. doi:10.1038/s41568-022-00446-5.
BCOR and BCORL1 Mutations Drive Epigenetic Reprogramming and Oncogenic Signaling by Unlinking PRC1.1 from Target Genes. Blood Cancer Discov. 2022;3(2):116-135. doi:10.1158/2643-3230.BCD-21-0115.
Unannotated proteins expand the MHC-I-restricted immunopeptidome in cancer. Nat Biotechnol. 2022;40(2):209-217. doi:10.1038/s41587-021-01021-3.
PPM1D mutations are oncogenic drivers of de novo diffuse midline glioma formation. Nat Commun. 2022;13(1):604. doi:10.1038/s41467-022-28198-8.
A Congenital Anemia Reveals Distinct Targeting Mechanisms for Master Transcription Factor GATA1. Blood. 2022. doi:10.1182/blood.2021013753.
Identification of RIOK2 as a master regulator of human blood cell development. Nat Immunol. 2022;23(1):109-121. doi:10.1038/s41590-021-01079-w.
Proximity-Labeling Reveals Novel Host and Parasite Proteins at the Parasitophorous Vacuole Membrane.
Proximity-Labeling Reveals Novel Host and Parasite Proteins at the Parasitophorous Vacuole Membrane. mBio. 2021;12(6):e0026021. doi:10.1128/mBio.00260-21.
Multiomic characterization of oncogenic signaling mediated by wild-type and mutant RIT1. Sci Signal. 2021;14(711):eabc4520. doi:10.1126/scisignal.abc4520.
Genomic Profiling of Lung Adenocarcinoma in Never-Smokers. J Clin Oncol. 2021;39(33):3747-3758. doi:10.1200/JCO.21.01691.
Automating UbiFast for High-throughput and Multiplexed Ubiquitin Enrichment. Mol Cell Proteomics. 2021:100154. doi:10.1016/j.mcpro.2021.100154.
Proteogenomic characterization of pancreatic ductal adenocarcinoma. Cell. 2021;184(19):5031-5052.e26. doi:10.1016/j.cell.2021.08.023.
is mutated in clonal hematopoiesis and myelodysplastic syndromes and impacts RNA splicing. Blood Cancer Discov. 2021;2(5):500-517. doi:10.1158/2643-3230.BCD-20-0224.
A highly multiplexed quantitative phosphosite assay for biology and preclinical studies. Mol Syst Biol. 2021;17(9):e10156. doi:10.15252/msb.202010156.
Proteomic profiling dataset of chemical perturbations in multiple biological backgrounds. Sci Data. 2021;8(1):226. doi:10.1038/s41597-021-01008-4.
Spatiotemporally-resolved mapping of RNA binding proteins via functional proximity labeling reveals a mitochondrial mRNA anchor promoting stress recovery. Nat Commun. 2021;12(1):4980. doi:10.1038/s41467-021-25259-2. .
Optimized liquid and gas phase fractionation increases HLA-peptidome coverage for primary cell and tissue samples. Mol Cell Proteomics. 2021:100133. doi:10.1016/j.mcpro.2021.100133.
Phenotype, specificity and avidity of antitumour CD8 T cells in melanoma. Nature. 2021;596(7870):119-125. doi:10.1038/s41586-021-03704-y.
Targeted mass spectrometry-based assays enable multiplex quantification of receptor tyrosine kinase, MAP Kinase, and AKT signaling. Cell Rep Methods. 2021;1(3). doi:10.1016/j.crmeth.2021.100015.
Profiling SARS-CoV-2 HLA-I peptidome reveals T cell epitopes from out-of-frame ORFs. Cell. 2021;184(15):3962-3980.e17. doi:10.1016/j.cell.2021.05.046.
Structure of PDE3A-SLFN12 complex reveals requirements for activation of SLFN12 RNase. Nat Commun. 2021;12(1):4375. doi:10.1038/s41467-021-24495-w.
STAG2 loss rewires oncogenic and developmental programs to promote metastasis in Ewing sarcoma. Cancer Cell. 2021;39(6):827-844.e10. doi:10.1016/j.ccell.2021.05.007.
Deep learning boosts sensitivity of mass spectrometry-based immunopeptidomics. Nat Commun. 2021;12(1):3346. doi:10.1038/s41467-021-23713-9.
Identification of a Novel Regulator of Clostridioides difficile Cortex Formation. mSphere. 2021:e0021121. doi:10.1128/mSphere.00211-21.
Human plasma proteomic profiles indicative of cardiorespiratory fitness. Nat Metab. 2021. doi:10.1038/s42255-021-00400-z.
PANOPLY: a cloud-based platform for automated and reproducible proteogenomic data analysis. Nat Methods. 2021. doi:10.1038/s41592-021-01176-6.
Cell-specific transcriptional control of mitochondrial metabolism by TIF1γ drives erythropoiesis. Science. 2021;372(6543):716-721. doi:10.1126/science.aaz2740.
Epigenetic silencing by SETDB1 suppresses tumour intrinsic immunogenicity. Nature. 2021. doi:10.1038/s41586-021-03520-4.
Avadomide induces degradation of ZMYM2 fusion oncoproteins in hematologic malignancies. Blood Cancer Discov. 2021;2(3):250-265. doi:10.1158/2643-3230.bcd-20-0105.
Proteomics of protein trafficking by in vivo tissue-specific labeling. Nat Commun. 2021;12(1):2382. doi:10.1038/s41467-021-22599-x.
Suppression of pancreatic ductal adenocarcinoma growth and metastasis by fibrillar collagens produced selectively by tumor cells. Nat Commun. 2021;12(1):2328. doi:10.1038/s41467-021-22490-9.
Blockade of IL-22 signaling reverses erythroid dysfunction in stress-induced anemias. Nat Immunol. 2021;22(4):520-529. doi:10.1038/s41590-021-00895-4.
Proteomic profiling reveals biomarkers and pathways in type 2 diabetes risk. JCI Insight. 2021;6(5). doi:10.1172/jci.insight.144392.
Biomarkers to distinguish bacterial from viral pediatric clinical pneumonia in a malaria endemic setting. Clin Infect Dis. 2021. doi:10.1093/cid/ciaa1843.
Dual functions of SPOP and ERG dictate androgen therapy responses in prostate cancer. Nat Commun. 2021;12(1):734. doi:10.1038/s41467-020-20820-x.
Noncanonical open reading frames encode functional proteins essential for cancer cell survival. Nat Biotechnol. 2021. doi:10.1038/s41587-020-00806-2.
Regulation of purine metabolism connects KCTD13 to a metabolic disorder with autistic features. iScience. 2021;24(1):101935. doi:10.1016/j.isci.2020.101935.
CBL mutations drive PI3K/AKT signaling via increased interaction with LYN and PIK3R1. Blood. 2021. doi:10.1182/blood.2020006528.
Proteogenomic insights into the biology and treatment of HPV-negative head and neck squamous cell carcinoma. Cancer Cell. 2021. doi:10.1016/j.ccell.2020.12.007.
The conserved translation factor LepA is required for optimal synthesis of a porin family in . J Bacteriol. 2020. doi:10.1128/JB.00604-20.
Cohesin mutations alter DNA damage repair and chromatin structure and create therapeutic vulnerabilities in MDS/AML. JCI Insight. 2020. doi:10.1172/jci.insight.142149.
The SARS-CoV-2 RNA-protein interactome in infected human cells. Nat Microbiol. 2020. doi:10.1038/s41564-020-00846-z.
Avant-garde: an automated data-driven DIA data curation tool. Nat Methods. 2020;17(12):1237-1244. doi:10.1038/s41592-020-00986-4.
Proximity labeling in mammalian cells with TurboID and split-TurboID. Nat Protoc. 2020;15(12):3971-3999. doi:10.1038/s41596-020-0399-0. .
Proteogenomic Landscape of Breast Cancer Tumorigenesis and Targeted Therapy. Cell. 2020;183(5):1436-1456.e31. doi:10.1016/j.cell.2020.10.036.
SARS-CoV-2 infected cells present HLA-I peptides from canonical and out-of-frame ORFs. bioRxiv. 2020. doi:10.1101/2020.10.02.324145.
BRG1 Loss Predisposes Lung Cancers to Replicative Stress and ATR Dependency. Cancer Res. 2020;80(18):3841-3854. doi:10.1158/0008-5472.CAN-20-1744.
RNA-protein interaction mapping via MS2- or Cas13-based APEX targeting. Proc Natl Acad Sci U S A. 2020;117(36):22068-22079. doi:10.1073/pnas.2006617117. .
CITED4 Protects Against Adverse Remodeling in Response to Physiological and Pathological Stress. Circ Res. 2020;127(5):631-646. doi:10.1161/CIRCRESAHA.119.315881.
Neurogranin, Encoded by the Schizophrenia Risk Gene NRGN, Bidirectionally Modulates Synaptic Plasticity via Calmodulin-Dependent Regulation of the Neuronal Phosphoproteome. Biol Psychiatry. 2020. doi:10.1016/j.biopsych.2020.07.014.
Rapid, deep and precise profiling of the plasma proteome with multi-nanoparticle protein corona. Nat Commun. 2020;11(1):3662. doi:10.1038/s41467-020-17033-7.
Proteogenomic Characterization Reveals Therapeutic Vulnerabilities in Lung Adenocarcinoma. Cell. 2020;182(1):200-225.e35. doi:10.1016/j.cell.2020.06.013.
Multi-Omics Analysis Identifies MGA as a Negative Regulator of the MYC Pathway in Lung Adenocarcinoma. Mol Cancer Res. 2020;18(4):574-584. doi:10.1158/1541-7786.MCR-19-0657.
Proteomic Profiling of the ECM of Xenograft Breast Cancer Metastases in Different Organs Reveals Distinct Metastatic Niches. Cancer Res. 2020;80(7):1475-1485. doi:10.1158/0008-5472.CAN-19-2961.
Virtual Issue: Technological Innovations. Mol Cell Proteomics. 2020;19(4):572-573. doi:10.1074/mcp.E120.002042. .
Steroid resistance in Diamond Blackfan anemia associates with p57Kip2 dysregulation in erythroid progenitors. J Clin Invest. 2020;130(4):2097-2110. doi:10.1172/JCI132284.
Increased mitochondrial apoptotic priming with targeted therapy predicts clinical response to re-induction chemotherapy. Am J Hematol. 2020;95(3):245-250. doi:10.1002/ajh.25692.
Discovery of suppressors of CRMP2 phosphorylation reveals compounds that mimic the behavioral effects of lithium on amphetamine-induced hyperlocomotion. Transl Psychiatry. 2020;10(1):76. doi:10.1038/s41398-020-0753-6.
Spontaneous Glycan Reattachment Following N-Glycanase Treatment of Influenza and HIV Vaccine Antigens. J Proteome Res. 2020;19(2):733-743. doi:10.1021/acs.jproteome.9b00620.
A large peptidome dataset improves HLA class I epitope prediction across most of the human population. Nat Biotechnol. 2020;38(2):199-209. doi:10.1038/s41587-019-0322-9.
Dual protease type XIII/pepsin digestion offers superior resolution and overlap for the analysis of histone tails by HX-MS. Methods. 2020. doi:10.1016/j.ymeth.2020.01.016. .
Microscaled proteogenomic methods for precision oncology. Nat Commun. 2020;11(1):532. doi:10.1038/s41467-020-14381-2.
Cell-Surface Proteomic Profiling in the Fly Brain Uncovers Wiring Regulators. Cell. 2020;180(2):373-386.e15. doi:10.1016/j.cell.2019.12.029.
Control of human hemoglobin switching by LIN28B-mediated regulation of BCL11A translation. Nat Genet. 2020. doi:10.1038/s41588-019-0568-7.
Rapid and deep-scale ubiquitylation profiling for biology and translational research. Nat Commun. 2020;11(1):359. doi:10.1038/s41467-019-14175-1.
Phosphorylation of RAB7 by TBK1/IKKε Regulates Innate Immune Signaling in Triple-Negative Breast Cancer. Cancer Res. 2020;80(1):44-56. doi:10.1158/0008-5472.CAN-19-1310.
Domain-specific Quantification of Prion Protein in Cerebrospinal Fluid by Targeted Mass Spectrometry. Mol Cell Proteomics. 2019;18(12):2388-2400. doi:10.1074/mcp.RA119.001702.
A rapid triage test for active pulmonary tuberculosis in adult patients with persistent cough. Sci Transl Med. 2019;11(515). doi:10.1126/scitranslmed.aaw8287.
Chasing Tails: Cathepsin-L Improves Structural Analysis of Histones by HX-MS. Mol Cell Proteomics. 2019;18(10):2089-2098. doi:10.1074/mcp.RA119.001325.
Mitochondrial Reprogramming Underlies Resistance to BCL-2 Inhibition in Lymphoid Malignancies. Cancer Cell. 2019. doi:10.1016/j.ccell.2019.08.005.
Combined Analysis of Metabolomes, Proteomes, and Transcriptomes of Hepatitis C Virus-Infected Cells and Liver to Identify Pathways Associated With Disease Development. Gastroenterology. 2019;157(2):537-551.e9. doi:10.1053/j.gastro.2019.04.003.
Patterns of substrate affinity, competition, and degradation kinetics underlie biological activity of thalidomide analogs. Blood. 2019;134(2):160-170. doi:10.1182/blood.2019000789.
TMT Labeling for the Masses: A Robust and Cost-efficient, In-solution Labeling Approach. Mol Cell Proteomics. 2019;18(7):1468-1478. doi:10.1074/mcp.TIR119.001385.
Regulated Phosphosignaling Associated with Breast Cancer Subtypes and Druggability. Mol Cell Proteomics. 2019. doi:10.1074/mcp.RA118.001243.
Neuronal differentiation and cell-cycle programs mediate response to BET-bromodomain inhibition in MYC-driven medulloblastoma. Nat Commun. 2019;10(1):2400. doi:10.1038/s41467-019-10307-9.
Streamlined Protocol for Deep Proteomic Profiling of FAC-sorted Cells and Its Application to Freshly Isolated Murine Immune Cells. Mol Cell Proteomics. 2019;18(5):995-1009. doi:10.1074/mcp.RA118.001259.
Trio Haploinsufficiency Causes Neurodevelopmental Disease-Associated Deficits. Cell Rep. 2019;26(10):2805-2817.e9. doi:10.1016/j.celrep.2019.02.022.
A Curated Resource for Phosphosite-specific Signature Analysis. Mol Cell Proteomics. 2019;18(3):576-593. doi:10.1074/mcp.TIR118.000943.
Evaluation of Advanced Precursor Determination for Tandem Mass Tag (TMT)-Based Quantitative Proteomics across Instrument Platforms. J Proteome Res. 2019;18(1):542-547. doi:10.1021/acs.jproteome.8b00611.
In Situ Peroxidase Labeling and Mass Spectrometry of Alpha-Synuclein in Rat Cortical Neurons. Methods Mol Biol. 2019;1948:235-246. doi:10.1007/978-1-4939-9124-2_18. .
Tetracyclines Modify Translation by Targeting Key Human rRNA Substructures. Cell Chem Biol. 2018;25(12):1506-1518.e13. doi:10.1016/j.chembiol.2018.09.010.
is sufficient to confer in vivo sensitivity to thalidomide and its derivatives in mice. Blood. 2018;132(14):1535-1544. doi:10.1182/blood-2018-05-852798.
Efficient proximity labeling in living cells and organisms with TurboID. Nat Biotechnol. 2018;36(9):880-887. doi:10.1038/nbt.4201.
Homo-PROTACs for the Chemical Knockdown of Cereblon. ACS Chem Biol. 2018;13(9):2771-2782. doi:10.1021/acschembio.8b00693.
-truncating mutations confer resistance to chemotherapy and sensitivity to PPM1D inhibition in hematopoietic cells. Blood. 2018;132(11):1095-1105. doi:10.1182/blood-2018-05-850339.
Proteomics, Post-translational Modifications, and Integrative Analyses Reveal Molecular Heterogeneity within Medulloblastoma Subgroups. Cancer Cell. 2018;34(3):396-410.e8. doi:10.1016/j.ccell.2018.08.004.
Lso2 is a conserved ribosome-bound protein required for translational recovery in yeast. PLoS Biol. 2018;16(9):e2005903. doi:10.1371/journal.pbio.2005903.
The NORAD lncRNA assembles a topoisomerase complex critical for genome stability. Nature. 2018;561(7721):132-136. doi:10.1038/s41586-018-0453-z.
Noncanonical translation via deadenylated 3' UTRs maintains primordial germ cells. Nat Chem Biol. 2018;14(9):844-852. doi:10.1038/s41589-018-0098-0.
Binding of TMPRSS2-ERG to BAF Chromatin Remodeling Complexes Mediates Prostate Oncogenesis. Mol Cell. 2018;71(4):554-566.e7. doi:10.1016/j.molcel.2018.06.040.
Nitric Oxide Engages an Anti-inflammatory Feedback Loop Mediated by Peroxiredoxin 5 in Phagocytes. Cell Rep. 2018;24(4):838-850. doi:10.1016/j.celrep.2018.06.081.
A phosphoproteomic signature in endothelial cells predicts vascular toxicity of tyrosine kinase inhibitors used in CML. Blood Adv. 2018;2(14):1680-1684. doi:10.1182/bloodadvances.2018020396.
Targeting wild-type KRAS-amplified gastroesophageal cancer through combined MEK and SHP2 inhibition.
Targeting wild-type KRAS-amplified gastroesophageal cancer through combined MEK and SHP2 inhibition. Nat Med. 2018;24(7):968-977. doi:10.1038/s41591-018-0022-x.
The C9orf72-interacting protein Smcr8 is a negative regulator of autoimmunity and lysosomal exocytosis. Genes Dev. 2018;32(13-14):929-943. doi:10.1101/gad.313932.118.
Anti-apoptotic Protein BIRC5 Maintains Survival of HIV-1-Infected CD4 T Cells. Immunity. 2018;48(6):1183-1194.e5. doi:10.1016/j.immuni.2018.04.004.
Harnessing single-cell genomics to improve the physiological fidelity of organoid-derived cell types. BMC Biol. 2018;16(1):62. doi:10.1186/s12915-018-0527-2.
Discovery of proteins associated with a predefined genomic locus via dCas9-APEX-mediated proximity labeling. Nat Methods. 2018;15(6):437-439. doi:10.1038/s41592-018-0007-1. .
Panorama Public: A Public Repository for Quantitative Data Sets Processed in Skyline. Mol Cell Proteomics. 2018;17(6):1239-1244. doi:10.1074/mcp.RA117.000543.
Specter: linear deconvolution for targeted analysis of data-independent acquisition mass spectrometry proteomics. Nat Methods. 2018;15(5):371-378. doi:10.1038/nmeth.4643.
A Library of Phosphoproteomic and Chromatin Signatures for Characterizing Cellular Responses to Drug Perturbations. Cell Syst. 2018;6(4):424-443.e7. doi:10.1016/j.cels.2018.03.012.
Ribosome Levels Selectively Regulate Translation and Lineage Commitment in Human Hematopoiesis. Cell. 2018;173(1):90-103.e19. doi:10.1016/j.cell.2018.02.036.
is a colitis risk gene that regulates stability of epithelial adherens junctions. Science. 2018;359(6380):1161-1166. doi:10.1126/science.aan0814.
Activity of the PI3K-δ,γ inhibitor duvelisib in a phase 1 trial and preclinical models of T-cell lymphoma. Blood. 2018;131(8):888-898. doi:10.1182/blood-2017-08-802470.
Mass spectrometry-based proteomics reveals potential roles of NEK9 and MAP2K4 in resistance to PI3K inhibitors in triple negative breast cancers. Cancer Res. 2018. doi:10.1158/0008-5472.CAN-17-1990.
Pervasive, Coordinated Protein-Level Changes Driven by Transcript Isoform Switching during Meiosis. Cell. 2018;172(5):910-923.e16. doi:10.1016/j.cell.2018.01.035.
The Library of Integrated Network-Based Cellular Signatures NIH Program: System-Level Cataloging of Human Cells Response to Perturbations. Cell Syst. 2018;6(1):13-24. doi:10.1016/j.cels.2017.11.001.
Quantitative Proteomic Profiling Reveals Novel Surface Antigens and Possible Vaccine Candidates. Mol Cell Proteomics. 2018;17(1):43-60. doi:10.1074/mcp.RA117.000076.
Receptor tyrosine kinase activation of RhoA is mediated by AKT phosphorylation of DLC1. J Cell Biol. 2017;216(12):4255-4270. doi:10.1083/jcb.201703105.
Quality Assessments of Long-Term Quantitative Proteomic Analysis of Breast Cancer Xenograft Tissues.
Quality Assessments of Long-Term Quantitative Proteomic Analysis of Breast Cancer Xenograft Tissues. J Proteome Res. 2017;16(12):4523-4530. doi:10.1021/acs.jproteome.7b00362.
Antibodies to biotin enable large-scale detection of biotinylation sites on proteins. Nat Methods. 2017;14(12):1167-1170. doi:10.1038/nmeth.4465.
Lysine trimethylation regulates 78-kDa glucose-regulated protein proteostasis during endoplasmic reticulum stress. J Biol Chem. 2017;292(46):18878-18885. doi:10.1074/jbc.M117.797084.
Site-specific identification and quantitation of endogenous SUMO modifications under native conditions. Nat Commun. 2017;8(1):1171. doi:10.1038/s41467-017-01271-3.
Opposing effects of cancer-type-specific SPOP mutants on BET protein degradation and sensitivity to BET inhibitors. Nat Med. 2017;23(9):1046-1054. doi:10.1038/nm.4372.
Quantitative, multiplexed workflow for deep analysis of human blood plasma and biomarker discovery by mass spectrometry. Nat Protoc. 2017;12(8):1683-1701. doi:10.1038/nprot.2017.054.
HIF activation causes synthetic lethality between the tumor suppressor and the histone methyltransferase. Sci Transl Med. 2017;9(398). doi:10.1126/scitranslmed.aal5272.
An Integrative Framework Reveals Signaling-to-Transcription Events in Toll-like Receptor Signaling. Cell Rep. 2017;19(13):2853-2866. doi:10.1016/j.celrep.2017.06.016.
Probing the lithium-response pathway in hiPSCs implicates the phosphoregulatory set-point for a cytoskeletal modulator in bipolar pathogenesis. Proc Natl Acad Sci U S A. 2017;114(22):E4462-E4471. doi:10.1073/pnas.1700111114.
Proteomic mapping of cytosol-facing outer mitochondrial and ER membranes in living human cells by proximity biotinylation. Elife. 2017;6. doi:10.7554/eLife.24463.
Proteogenomic integration reveals therapeutic targets in breast cancer xenografts. Nat Commun. 2017;8:14864. doi:10.1038/ncomms14864.
Proximity Biotinylation as a Method for Mapping Proteins Associated with mtDNA in Living Cells. Cell Chem Biol. 2017;24(3):404-414. doi:10.1016/j.chembiol.2017.02.002.
New Guidelines for Publication of Manuscripts Describing Development and Application of Targeted Mass Spectrometry Measurements of Peptides and Proteins. Mol Cell Proteomics. 2017;16(3):327-328. doi:10.1074/mcp.E117.067801.
In Situ Peroxidase Labeling and Mass-Spectrometry Connects Alpha-Synuclein Directly to Endocytic Trafficking and mRNA Metabolism in Neurons. Cell Syst. 2017;4(2):242-250.e4. doi:10.1016/j.cels.2017.01.002.
Ribosomal mutations promote the evolution of antibiotic resistance in a multidrug environment. Elife. 2017;6. doi:10.7554/eLife.20420.
Mass Spectrometry Profiling of HLA-Associated Peptidomes in Mono-allelic Cells Enables More Accurate Epitope Prediction. Immunity. 2017;46(2):315-326. doi:10.1016/j.immuni.2017.02.007.
Castration Resistance in Prostate Cancer Is Mediated by the Kinase NEK6. Cancer Res. 2017;77(3):753-765. doi:10.1158/0008-5472.CAN-16-0455.
Quantitative proteomic profiling of the extracellular matrix of pancreatic islets during the angiogenic switch and insulinoma progression. Sci Rep. 2017;7:40495. doi:10.1038/srep40495. .
Proteome Profiling Outperforms Transcriptome Profiling for Coexpression Based Gene Function Prediction. Mol Cell Proteomics. 2017;16(1):121-134. doi:10.1074/mcp.M116.060301.
TMEM258 Is a Component of the Oligosaccharyltransferase Complex Controlling ER Stress and Intestinal Inflammation. Cell Rep. 2016;17(11):2955-2965. doi:10.1016/j.celrep.2016.11.042.
Transcriptional categorization of the etiology of pneumonia syndrome in pediatric patients in malaria endemic areas. J Infect Dis. 2016. doi:10.1093/infdis/jiw531.
Reconstituted B cell receptor signaling reveals carbohydrate-dependent mode of activation. Sci Rep. 2016;6:36298. doi:10.1038/srep36298.
A proposal for validation of antibodies. Nat Methods. 2016;13(10):823-7. doi:10.1038/nmeth.3995.
Genetic and Proteomic Interrogation of Lower Confidence Candidate Genes Reveals Signaling Networks in β-Catenin-Active Cancers. Cell Syst. 2016;3(3):302-316.e4. doi:10.1016/j.cels.2016.09.001.
Proteomic Analysis of Unbounded Cellular Compartments: Synaptic Clefts. Cell. 2016;166(5):1295-1307.e21. doi:10.1016/j.cell.2016.07.041.
Automated Microchromatography Enables Multiplexing of Immunoaffinity Enrichment of Peptides to Greater than 150 for Targeted MS-Based Assays. Anal Chem. 2016;88(15):7548-55. doi:10.1021/acs.analchem.6b00946.
Aptamer-Based Proteomic Profiling Reveals Novel Candidate Biomarkers and Pathways in Cardiovascular Disease. Circulation. 2016;134(4):270-85. doi:10.1161/CIRCULATIONAHA.116.021803.
Mitochondrial dysfunction remodels one-carbon metabolism in human cells. Elife. 2016;5. doi:10.7554/eLife.10575.
Proteogenomics connects somatic mutations to signalling in breast cancer. Nature. 2016;534(7605):55-62. doi:10.1038/nature18003.
Reduced-representation Phosphosignatures Measured by Quantitative Targeted MS Capture Cellular States and Enable Large-scale Comparison of Drug-induced Phenotypes. Mol Cell Proteomics. 2016;15(5):1622-41. doi:10.1074/mcp.M116.058354.
Targeted MS Assay Predicting Tamoxifen Resistance in Estrogen-Receptor-Positive Breast Cancer Tissues and Sera. J Proteome Res. 2016;15(4):1230-42. doi:10.1021/acs.jproteome.5b01119.
Reproducibility of Differential Proteomic Technologies in CPTAC Fractionated Xenografts. J Proteome Res. 2016;15(3):691-706. doi:10.1021/acs.jproteome.5b00859.
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