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Proteomics Platform

Avant-garde: an automated data-driven DIA data curation tool.

Jacome AS, Peckner R, Shulman N, et al. Avant-garde: an automated data-driven DIA data curation tool. Nat Methods. 2020;17(12):1237-1244. doi:10.1038/s41592-020-00986-4

Proteogenomic Landscape of Breast Cancer Tumorigenesis and Targeted Therapy.

Krug K, Jaehnig EJ, Satpathy S, et al. 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.

Weingarten-Gabbay S, Klaeger S, Sarkizova S, et al. 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.

Gupta M, Concepcion CP, Fahey CG, et al. 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.

Han S, Zhao BS, Myers SA, Carr SA, He C, Ting AY. 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.

Lerchenmüller C, Rabolli CP, Yeri A, et al. 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.

Hwang H, Szucs MJ, Ding LJ, et al. 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.

Blume JE, Manning WC, Troiano G, et al. 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.

Gillette MA, Satpathy S, Cao S, et al. 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.

Llabata P, Mitsuishi Y, Choi PS, et al. 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