David Shteynberg
Cited by
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Genome sequence of the Brown Norway rat yields insights into mammalian evolution
RA Gibbs, L Pachter
Nature 428 (6982), 493-521, 2004
A guided tour of the Trans‐Proteomic Pipeline
EW Deutsch, L Mendoza, D Shteynberg, T Farrah, H Lam, N Tasman, ...
Proteomics 10 (6), 1150-1159, 2010
iProphet: multi-level integrative analysis of shotgun proteomic data improves peptide and protein identification rates and error estimates
D Shteynberg, EW Deutsch, H Lam, JK Eng, Z Sun, N Tasman, ...
Molecular & cellular proteomics 10 (12), 2011
Human SRMAtlas: a resource of targeted assays to quantify the complete human proteome
U Kusebauch, DS Campbell, EW Deutsch, CS Chu, DA Spicer, ...
Cell 166 (3), 766-778, 2016
Trans‐Proteomic Pipeline, a standardized data processing pipeline for large‐scale reproducible proteomics informatics
EW Deutsch, L Mendoza, D Shteynberg, J Slagel, Z Sun, RL Moritz
PROTEOMICS–Clinical Applications 9 (7-8), 745-754, 2015
Combining results of multiple search engines in proteomics
D Shteynberg, AI Nesvizhskii, RL Moritz, EW Deutsch
Molecular & Cellular Proteomics 12 (9), 2383-2393, 2013
Oncogenic H-ras reprograms Madin-Darby canine kidney (MDCK) cell-derived exosomal proteins following epithelial-mesenchymal transition
BJ Tauro, RA Mathias, DW Greening, SK Gopal, H Ji, EA Kapp, ...
Molecular & cellular proteomics 12 (8), 2148-2159, 2013
State of the human proteome in 2013 as viewed through PeptideAtlas: comparing the kidney, urine, and plasma proteomes for the biology-and disease-driven Human Proteome Project
T Farrah, EW Deutsch, GS Omenn, Z Sun, JD Watts, T Yamamoto, ...
Journal of proteome research 13 (1), 60-75, 2014
Optimized peptide separation and identification for mass spectrometry based proteomics via free-flow electrophoresis
J Malmström, H Lee, AI Nesvizhskii, D Shteynberg, S Mohanty, E Brunner, ...
Journal of proteome research 5 (9), 2241-2249, 2006
MaRiMba: a software application for spectral library-based MRM transition list assembly
CA Sherwood, A Eastham, LW Lee, A Peterson, JK Eng, D Shteynberg, ...
Journal of proteome research 8 (10), 4396-4405, 2009
State of the human proteome in 2014/2015 as viewed through PeptideAtlas: enhancing accuracy and coverage through the AtlasProphet
EW Deutsch, Z Sun, D Campbell, U Kusebauch, CS Chu, L Mendoza, ...
Journal of proteome research 14 (9), 3461-3473, 2015
Identification of rat genes by TWINSCAN gene prediction, RT–PCR, and direct sequencing
JQ Wu, D Shteynberg, M Arumugam, RA Gibbs, MR Brent
Genome Research 14 (4), 665-671, 2004
Software pipeline and data analysis for MS/MS proteomics: the trans-proteomic pipeline
A Keller, D Shteynberg
Bioinformatics for Comparative Proteomics, 169-189, 2011
Comparative proteome analysis reveals conserved and specific adaptation patterns of Staphylococcus aureus after internalization by different types of human non-professional …
K Surmann, S Michalik, P Hildebrandt, P Gierok, M Depke, L Brinkmann, ...
Frontiers in microbiology 5, 392, 2014
Integrated phosphoproteomics analysis of a signaling network governing nutrient response and peroxisome induction
RA Saleem, RS Rogers, AV Ratushny, DJ Dilworth, PT Shannon, ...
Molecular & Cellular Proteomics 9 (9), 2076-2088, 2010
Trans‐Proteomic Pipeline supports and improves analysis of electron transfer dissociation data sets
EW Deutsch, D Shteynberg, H Lam, Z Sun, JK Eng, C Carapito, ...
Proteomics 10 (6), 1190-1195, 2010
Opening a SWATH window on posttranslational modifications: automated pursuit of modified peptides
A Keller, SL Bader, U Kusebauch, D Shteynberg, L Hood, RL Moritz
Molecular & Cellular Proteomics 15 (3), 1151-1163, 2016
Gene finding in the chicken genome
E Eyras, A Reymond, R Castelo, JM Bye, F Camara, P Flicek, EJ Huckle, ...
BMC bioinformatics 6 (1), 1-12, 2005
Automated Validation of Results and Removal of Fragment Ion Interferences in Targeted Analysis of Data-independent Acquisition Mass Spectrometry (MS) using SWATHProphet*[S]
A Keller, SL Bader, D Shteynberg, L Hood, RL Moritz
Molecular & Cellular Proteomics 14 (5), 1411-1418, 2015
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