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Gloria M. Sheynkman, Ph.D. - Publications

Affiliations: 
2014 Chemistry University of Wisconsin, Madison, Madison, WI 
Area:
surface chemistry, mass spectrometry
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22 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2024 Li G, Mahajan S, Ma S, Jeffery ED, Zhang X, Bhattacharjee A, Venkatasubramanian M, Weirauch MT, Miraldi ER, Grimes HL, Sheynkman GM, Tilburgs T, Salomonis N. Splicing neoantigen discovery with SNAF reveals shared targets for cancer immunotherapy. Science Translational Medicine. 16: eade2886. PMID 38232136 DOI: 10.1126/scitranslmed.ade2886  0.307
2023 Pardo-Palacios FJ, Wang D, Reese F, Diekhans M, Carbonell-Sala S, Williams B, Loveland JE, De María M, Adams MS, Balderrama-Gutierrez G, Behera AK, Gonzalez JM, Hunt T, Lagarde J, Liang CE, ... ... Sheynkman GM, et al. Systematic assessment of long-read RNA-seq methods for transcript identification and quantification. Biorxiv : the Preprint Server For Biology. PMID 37546854 DOI: 10.1101/2023.07.25.550582  0.359
2023 de Souza VBC, Jordan BT, Tseng E, Nelson EA, Hirschi KK, Sheynkman G, Robinson MD. Transformation of alignment files improves performance of variant callers for long-read RNA sequencing data. Genome Biology. 24: 91. PMID 37095564 DOI: 10.1186/s13059-023-02923-y  0.317
2023 Abood A, Mesner LD, Jeffery ED, Murali M, Lehe M, Saquing J, Farber CR, Sheynkman GM. Long-read proteogenomics to connect disease-associated sQTLs to the protein isoform effectors of disease. Biorxiv : the Preprint Server For Biology. PMID 36993769 DOI: 10.1101/2023.03.17.531557  0.414
2022 Mehlferber MM, Jeffery ED, Saquing J, Jordan BT, Sheynkman L, Murali M, Genet G, Acharya BR, Hirschi KK, Sheynkman GM. Characterization of protein isoform diversity in human umbilical vein endothelial cells via long-read proteogenomics. Rna Biology. 19: 1228-1243. PMID 36457147 DOI: 10.1080/15476286.2022.2141938  0.473
2022 Castaldi PJ, Abood A, Farber CR, Sheynkman GM. Bridging the splicing gap in human genetics with long-read RNA sequencing: finding the protein isoform drivers of disease. Human Molecular Genetics. PMID 35960994 DOI: 10.1093/hmg/ddac196  0.359
2022 Miller RM, Jordan BT, Mehlferber MM, Jeffery ED, Chatzipantsiou C, Kaur S, Millikin RJ, Dai Y, Tiberi S, Castaldi PJ, Shortreed MR, Luckey CJ, Conesa A, Smith LM, Deslattes Mays A, ... Sheynkman GM, et al. Enhanced protein isoform characterization through long-read proteogenomics. Genome Biology. 23: 69. PMID 35241129 DOI: 10.1186/s13059-022-02624-y  0.595
2020 Sheynkman GM, Tuttle KS, Laval F, Tseng E, Underwood JG, Yu L, Dong D, Smith ML, Sebra R, Willems L, Hao T, Calderwood MA, Hill DE, Vidal M. ORF Capture-Seq as a versatile method for targeted identification of full-length isoforms. Nature Communications. 11: 2326. PMID 32393825 DOI: 10.1038/S41467-020-16174-Z  0.404
2020 Luck K, Kim DK, Lambourne L, Spirohn K, Begg BE, Bian W, Brignall R, Cafarelli T, Campos-Laborie FJ, Charloteaux B, Choi D, Coté AG, Daley M, Deimling S, Desbuleux A, ... ... Sheynkman GM, et al. A reference map of the human binary protein interactome. Nature. 580: 402-408. PMID 32296183 DOI: 10.1038/S41586-020-2188-X  0.405
2019 Miller RM, Millikin RJ, Hoffmann CV, Solntsev SK, Sheynkman GM, Shortreed MR, Smith LM. Improved Protein Inference from Multiple Protease Bottom-Up Mass Spectrometry Data. Journal of Proteome Research. PMID 31378069 DOI: 10.1021/Acs.Jproteome.9B00330  0.679
2018 Anvar SY, Allard G, Tseng E, Sheynkman GM, de Klerk E, Vermaat M, Yin RH, Johansson HE, Ariyurek Y, den Dunnen JT, Turner SW, 't Hoen PAC. Full-length mRNA sequencing uncovers a widespread coupling between transcription initiation and mRNA processing. Genome Biology. 19: 46. PMID 29598823 DOI: 10.1186/S13059-018-1418-0  0.335
2017 Luck K, Sheynkman GM, Zhang I, Vidal M. Proteome-Scale Human Interactomics. Trends in Biochemical Sciences. PMID 28284537 DOI: 10.1016/J.Tibs.2017.02.006  0.399
2016 Keller MP, Paul PK, Rabaglia ME, Stapleton DS, Schueler KL, Broman AT, Ye SI, Leng N, Brandon CJ, Neto EC, Plaisier CL, Simonett SP, Kebede MA, Sheynkman GM, Klein MA, et al. The Transcription Factor Nfatc2 Regulates β-Cell Proliferation and Genes Associated with Type 2 Diabetes in Mouse and Human Islets. Plos Genetics. 12: e1006466. PMID 27935966 DOI: 10.1371/Journal.Pgen.1006466  0.444
2016 Sheynkman GM, Shortreed MR, Cesnik AJ, Smith LM. Proteogenomics: Integrating Next-Generation Sequencing and Mass Spectrometry to Characterize Human Proteomic Variation. Annual Review of Analytical Chemistry (Palo Alto, Calif.). PMID 27049631 DOI: 10.1146/Annurev-Anchem-071015-041722  0.636
2016 Yang X, Coulombe-Huntington J, Kang S, Sheynkman GM, Hao T, Richardson A, Sun S, Yang F, Shen YA, Murray RR, Spirohn K, Begg BE, Duran-Frigola M, MacWilliams A, Pevzner SJ, et al. Widespread Expansion of Protein Interaction Capabilities by Alternative Splicing. Cell. 164: 805-817. PMID 26871637 DOI: 10.1016/J.Cell.2016.01.029  0.43
2015 Cesnik AJ, Shortreed MR, Sheynkman GM, Frey BL, Smith LM. Human Proteomic Variation Revealed by Combining RNA-Seq Proteogenomics and Global Post-Translational Modification (G-PTM) Search Strategy. Journal of Proteome Research. PMID 26704769 DOI: 10.1021/Acs.Jproteome.5B00817  0.719
2015 Shortreed MR, Wenger CD, Frey BL, Sheynkman GM, Scalf M, Keller MP, Attie AD, Smith LM. Global Identification of Protein Post-translational Modifications in a Single-Pass Database Search. Journal of Proteome Research. 14: 4714-20. PMID 26418581 DOI: 10.1021/Acs.Jproteome.5B00599  0.678
2014 Sheynkman GM, Johnson JE, Jagtap PD, Shortreed MR, Onsongo G, Frey BL, Griffin TJ, Smith LM. Using Galaxy-P to leverage RNA-Seq for the discovery of novel protein variations. Bmc Genomics. 15: 703. PMID 25149441 DOI: 10.1186/1471-2164-15-703  0.718
2014 Wen B, Xu S, Sheynkman GM, Feng Q, Lin L, Wang Q, Xu X, Wang J, Liu S. sapFinder: an R/Bioconductor package for detection of variant peptides in shotgun proteomics experiments. Bioinformatics (Oxford, England). 30: 3136-8. PMID 25053745 DOI: 10.1093/Bioinformatics/Btu397  0.565
2014 Sheynkman GM, Shortreed MR, Frey BL, Scalf M, Smith LM. Large-scale mass spectrometric detection of variant peptides resulting from nonsynonymous nucleotide differences. Journal of Proteome Research. 13: 228-40. PMID 24175627 DOI: 10.1021/Pr4009207  0.701
2013 Sheynkman GM, Shortreed MR, Frey BL, Smith LM. Discovery and mass spectrometric analysis of novel splice-junction peptides using RNA-Seq. Molecular & Cellular Proteomics : McP. 12: 2341-53. PMID 23629695 DOI: 10.1074/Mcp.O113.028142  0.694
2012 Sturm R, Sheynkman G, Booth C, Smith LM, Pedersen JA, Li L. Absolute quantification of prion protein (90-231) using stable isotope-labeled chymotryptic peptide standards in a LC-MRM AQUA workflow. Journal of the American Society For Mass Spectrometry. 23: 1522-33. PMID 22714949 DOI: 10.1007/S13361-012-0411-1  0.64
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