Amanda Paulovich
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Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles
A Subramanian, P Tamayo, VK Mootha, S Mukherjee, BL Ebert, ...
Proceedings of the National Academy of Sciences 102 (43), 15545-15550, 2005
Proteogenomics connects somatic mutations to signalling in breast cancer
P Mertins, DR Mani, KV Ruggles, MA Gillette, KR Clauser, P Wang, ...
Nature 534 (7605), 55-62, 2016
Multi-site assessment of the precision and reproducibility of multiple reaction monitoring–based measurements of proteins in plasma
TA Addona, SE Abbatiello, B Schilling, SJ Skates, DR Mani, DM Bunk, ...
Nature biotechnology 27 (7), 633-641, 2009
When checkpoints fail
AG Paulovich, DP Toczyski, LH Hartwell
Cell 88 (3), 315-321, 1997
A checkpoint regulates the rate of progression through S phase in S. cerevisiae in response to DNA damage
AG Paulovich, LH Hartwell
Cell 82 (5), 841-847, 1995
Integrated proteogenomic characterization of human high-grade serous ovarian cancer
H Zhang, T Liu, Z Zhang, SH Payne, B Zhang, JE McDermott, JY Zhou, ...
Cell 166 (3), 755-765, 2016
Repeatability and reproducibility in proteomic identifications by liquid chromatography− tandem mass spectrometry
DL Tabb, L Vega-Montoto, PA Rudnick, AM Variyath, AJL Ham, DM Bunk, ...
Journal of proteome research 9 (2), 761-776, 2010
Targeted peptide measurements in biology and medicine: best practices for mass spectrometry-based assay development using a fit-for-purpose approach
SA Carr, SE Abbatiello, BL Ackermann, C Borchers, B Domon, ...
Molecular & Cellular Proteomics 13 (3), 907-917, 2014
A targeted proteomics–based pipeline for verification of biomarkers in plasma
JR Whiteaker, C Lin, J Kennedy, L Hou, M Trute, I Sokal, P Yan, ...
Nature biotechnology 29 (7), 625-634, 2011
An automated and multiplexed method for high throughput peptide immunoaffinity enrichment and multiple reaction monitoring mass spectrometry-based quantification of protein …
JR Whiteaker, L Zhao, L Anderson, AG Paulovich
Molecular & Cellular Proteomics 9 (1), 184-196, 2010
Proteogenomic analysis of human colon cancer reveals new therapeutic opportunities
S Vasaikar, C Huang, X Wang, VA Petyuk, SR Savage, B Wen, Y Dou, ...
Cell 177 (4), 1035-1049. e19, 2019
Ischemia in tumors induces early and sustained phosphorylation changes in stress kinase pathways but does not affect global protein levels
P Mertins, F Yang, T Liu, DR Mani, VA Petyuk, MA Gillette, KR Clauser, ...
Molecular & cellular proteomics 13 (7), 1690-1704, 2014
A suite of algorithms for the comprehensive analysis of complex protein mixtures using high-resolution LC-MS
M Bellew, M Coram, M Fitzgibbon, M Igra, T Randolph, P Wang, D May, ...
Bioinformatics 22 (15), 1902-1909, 2006
Antibody-based enrichment of peptides on magnetic beads for mass-spectrometry-based quantification of serum biomarkers
JR Whiteaker, L Zhao, HY Zhang, LC Feng, BD Piening, L Anderson, ...
Analytical biochemistry 362 (1), 44-54, 2007
RAD9, RAD17, and RAD24 Are Required for S Phase Regulation in Saccharomyces cerevisiae in Response to DNA Damage
AG Paulovich, RU Margulies, BM Garvik, LH Hartwell
Genetics 145 (1), 45-62, 1997
Phosphoproteomic analysis of chimeric antigen receptor signaling reveals kinetic and quantitative differences that affect cell function
AI Salter, RG Ivey, JJ Kennedy, V Voillet, A Rajan, EJ Alderman, ...
Science signaling 11 (544), eaat6753, 2018
Effect of collision energy optimization on the measurement of peptides by selected reaction monitoring (SRM) mass spectrometry
B MacLean, DM Tomazela, SE Abbatiello, S Zhang, JR Whiteaker, ...
Analytical chemistry 82 (24), 10116-10124, 2010
The interface between biomarker discovery and clinical validation: the tar pit of the protein biomarker pipeline
AG Paulovich, JR Whiteaker, AN Hoofnagle, P Wang
PROTEOMICS–Clinical Applications 2 (10‐11), 1386-1402, 2008
Integrated proteogenomic characterization of clear cell renal cell carcinoma
DJ Clark, SM Dhanasekaran, F Petralia, J Pan, X Song, Y Hu, ...
Cell 179 (4), 964-983. e31, 2019
A human proteome detection and quantitation project
NL Anderson, NG Anderson, TW Pearson, CH Borchers, AG Paulovich, ...
Molecular & Cellular Proteomics 8 (5), 883-886, 2009
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