Solid-Phase Compatible Silane-Based Cleavable Linker Enables Custom Isobaric Quantitative Chemoproteomics.

Autor: Burton NR; Department of Biological Chemistry, David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, California 90095, United States.; Department of Chemistry and Biochemistry, University of California, Los Angeles, Los Angeles, California 90095, United States., Polasky DA; Department of Pathology, University of Michigan, Ann Arbor, Michigan 48109, United States., Shikwana F; Department of Biological Chemistry, David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, California 90095, United States.; Department of Chemistry and Biochemistry, University of California, Los Angeles, Los Angeles, California 90095, United States., Ofori S; Department of Biological Chemistry, David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, California 90095, United States., Yan T; Department of Biological Chemistry, David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, California 90095, United States.; Department of Chemistry and Biochemistry, University of California, Los Angeles, Los Angeles, California 90095, United States., Geiszler DJ; Department of Computational Medicine and Bioinformatics, University of Michigan, Ann Arbor, Michigan 48109, United States., Veiga Leprevost FD; Department of Pathology, University of Michigan, Ann Arbor, Michigan 48109, United States., Nesvizhskii AI; Department of Computational Medicine and Bioinformatics, University of Michigan, Ann Arbor, Michigan 48109, United States.; Department of Pathology, University of Michigan, Ann Arbor, Michigan 48109, United States., Backus KM; Department of Biological Chemistry, David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, California 90095, United States.; Department of Chemistry and Biochemistry, University of California, Los Angeles, Los Angeles, California 90095, United States.; Molecular Biology Institute, University of California, Los Angeles, Los Angeles, California 90095, United States.; DOE Institute for Genomics and Proteomics, University of California, Los Angeles, Los Angeles, California 90095, United States.; Eli and Edythe Broad Center of Regenerative Medicine and Stem Cell Research, University of California, Los Angeles, Los Angeles, California 90095, United States.; Jonsson Comprehensive Cancer Center, University of California, Los Angeles, Los Angeles, California 90095, United States.

Publikováno v: Journal of the American Chemical Society [J Am Chem Soc] 2023 Oct 04; Vol. 145 (39), pp. 21303-21318. Date of Electronic Publication: 2023 Sep 22.

MSFragger-Labile: A Flexible Method to Improve Labile PTM Analysis in Proteomics.

Autor: Polasky DA; Department of Pathology, University of Michigan, Ann Arbor, Michigan, USA. Electronic address: dpolasky@umich.edu., Geiszler DJ; Department of Computational Medicine and Bioinformatics, University of Michigan, Ann Arbor, Michigan, USA., Yu F; Department of Pathology, University of Michigan, Ann Arbor, Michigan, USA., Li K; Department of Computational Medicine and Bioinformatics, University of Michigan, Ann Arbor, Michigan, USA., Teo GC; Department of Pathology, University of Michigan, Ann Arbor, Michigan, USA., Nesvizhskii AI; Department of Pathology, University of Michigan, Ann Arbor, Michigan, USA; Department of Computational Medicine and Bioinformatics, University of Michigan, Ann Arbor, Michigan, USA. Electronic address: nesvi@med.umich.edu.

Publikováno v: Molecular & cellular proteomics : MCP [Mol Cell Proteomics] 2023 May; Vol. 22 (5), pp. 100538. Date of Electronic Publication: 2023 Mar 31.

Multiattribute Glycan Identification and FDR Control for Glycoproteomics.

Autor: Polasky DA; Department of Pathology, University of Michigan, Ann Arbor, Michigan, USA., Geiszler DJ; Department of Computational Medicine and Bioinformatics, University of Michigan, Ann Arbor, Michigan, USA., Yu F; Department of Pathology, University of Michigan, Ann Arbor, Michigan, USA., Nesvizhskii AI; Department of Pathology, University of Michigan, Ann Arbor, Michigan, USA; Department of Computational Medicine and Bioinformatics, University of Michigan, Ann Arbor, Michigan, USA. Electronic address: nesvi@med.umich.edu.

Publikováno v: Molecular & cellular proteomics : MCP [Mol Cell Proteomics] 2022 Mar; Vol. 21 (3), pp. 100205. Date of Electronic Publication: 2022 Jan 26.

Identification of modified peptides using localization-aware open search.

Autor: Yu F; Department of Pathology, University of Michigan, Ann Arbor, Michigan, USA., Teo GC; Department of Pathology, University of Michigan, Ann Arbor, Michigan, USA., Kong AT; Department of Pathology, University of Michigan, Ann Arbor, Michigan, USA., Haynes SE; Department of Pathology, University of Michigan, Ann Arbor, Michigan, USA., Avtonomov DM; Department of Pathology, University of Michigan, Ann Arbor, Michigan, USA., Geiszler DJ; Department of Pathology, University of Michigan, Ann Arbor, Michigan, USA., Nesvizhskii AI; Department of Pathology, University of Michigan, Ann Arbor, Michigan, USA. nesvi@med.umich.edu.; Department of Computational Medicine and Bioinformatics, University of Michigan, Ann Arbor, Michigan, USA. nesvi@med.umich.edu.

Publikováno v: Nature communications [Nat Commun] 2020 Aug 13; Vol. 11 (1), pp. 4065. Date of Electronic Publication: 2020 Aug 13.