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A
Wühr M, Haas W, McAlister GC, Peshkin L, Rad R, Kirschner MW, et al.. Accurate multiplexed proteomics at the MS2 level using the complement reporter ion cluster. Anal Chem. 2012 ;84(21):9214-21.
B
Peshkin L, Gupta M, Ryazanova L, Wühr M. Bayesian Confidence Intervals for Multiplexed Proteomics Integrate Ion-statistics with Peptide Quantification Concordance. Mol Cell Proteomics. 2019 ;18(10):2108-2120.
D
Wühr M, Freeman RM, Presler M, Horb ME, Peshkin L, Gygi S, et al.. Deep proteomics of the Xenopus laevis egg using an mRNA-derived reference database. Curr Biol. 2014 ;24(13):1467-1475.
Greco TM, Guise AJ, Cristea IM. Determining the Composition and Stability of Protein Complexes Using an Integrated Label-Free and Stable Isotope Labeling Strategy. Methods Mol Biol. 2016 ;1410:39-63.
Hong S, Zhou W, Fang B, Lu W, Loro E, Damle M, et al. Dissociation of muscle insulin sensitivity from exercise endurance in mice by HDAC3 depletion. Nat Med. 2017 ;23(2):223-234.
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Kennedy L, Kaltenbrun E, Greco TM, Temple B, Herring LE, Cristea IM, et al. Formation of a TBX20-CASZ1 protein complex is protective against dilated cardiomyopathy and critical for cardiac homeostasis. PLoS Genet. 2017 ;13(9):e1007011.
Diner BA, Li T, Greco TM, Crow MS, Fuesler JA, Wang J, et al. The functional interactome of PYHIN immune regulators reveals IFIX is a sensor of viral DNA. Mol Syst Biol. 2015 ;11(1):787.
H
Jenness C, Giunta S, Müller MM, Kimura H, Muir TW, Funabiki H. HELLS and CDCA7 comprise a bipartite nucleosome remodeling complex defective in ICF syndrome. Proc Natl Acad Sci U S A. 2018 ;115(5):E876-E885.
Nechay M, Kleiner RE. High-throughput approaches to profile RNA-protein interactions. Curr Opin Chem Biol. 2020 ;54:37-44.
Cristea IM. The Host-Pathogen Ecosystem Viewed Through the Prism of Proteomics. Mol Cell Proteomics. 2017 ;16(4 suppl 1):S1-S4.
Aebersold R, Agar JN, I Amster J, Baker MS, Bertozzi CR, Boja ES, et al. How many human proteoforms are there?. Nat Chem Biol. 2018 ;14(3):206-214.
Crow MS, Cristea IM. Human Antiviral Protein IFIX Suppresses Viral Gene Expression during Herpes Simplex Virus 1 (HSV-1) Infection and Is Counteracted by Virus-induced Proteasomal Degradation. Mol Cell Proteomics. 2017 ;16(4 suppl 1):S200-S214.
Oberstein A, Perlman DH, Shenk T, Terry LJ. Human cytomegalovirus pUL97 kinase induces global changes in the infected cell phosphoproteome. Proteomics. 2015 ;15(12):2006-22.
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Winer B, Edgel KA, Zou X, Sellau J, Hadiwidjojo S, Garver LS, et al. Identification of Plasmodium falciparum proteoforms from liver stage models. Malar J. 2020 ;19(1):10.
Viktorovskaya OV, Greco TM, Cristea IM, Thompson SR. Identification of RNA Binding Proteins Associated with Dengue Virus RNA in Infected Cells Reveals Temporally Distinct Host Factor Requirements. PLoS Negl Trop Dis. 2016 ;10(8):e0004921.
Beltran PMJean, Cook KC, Hashimoto Y, Galitzine C, Murray LA, Vitek O, et al. Infection-Induced Peroxisome Biogenesis Is a Metabolic Strategy for Herpesvirus Replication. Cell Host Microbe. 2018 ;24(4):526-541.e7.
Sauls K, Greco TM, Wang L, Zou M, Villasmil M, Qian L, et al. Initiating Events in Direct Cardiomyocyte Reprogramming. Cell Rep. 2018 ;22(7):1913-1922.
Gong Y, Cao R, Ding G, Hong S, Zhou W, Lu W, et al. Integrated omics approaches to characterize a nuclear receptor corepressor-associated histone deacetylase in mouse skeletal muscle. Mol Cell Endocrinol. 2018 ;471:22-32.
Diner BA, Lum KK, Javitt A, Cristea IM. Interactions of the Antiviral Factor Interferon Gamma-Inducible Protein 16 (IFI16) Mediate Immune Signaling and Herpes Simplex Virus-1 Immunosuppression. Mol Cell Proteomics. 2015 ;14(9):2341-56.
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Cook KC, Cristea IM. Location is everything: protein translocations as a viral infection strategy. Curr Opin Chem Biol. 2019 ;48:34-43.
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Murray LA, Combs AN, Rekapalli P, Cristea IM. Methods for characterizing protein acetylation during viral infection. Methods Enzymol. 2019 ;626:587-620.