ASXL1 Mutations Promote Myeloid Transformation through Loss of PRC2-Mediated Gene Repression von Abdel-Wahab, Omar, Adli, Mazhar, LaFave, Lindsay M., Gao, Jie, Hricik, Todd, Shih, Alan H., Pandey, Suveg, Patel, Jay P., Chung, Young Rock, Koche, Richard, Perna, Fabiana, Zhao, Xinyang, Taylor, Jordan E., Park, Christopher Y., Carroll, Martin, Melnick, Ari, Nimer, Stephen D., Jaffe, Jacob D., Aifantis, Iannis, Bernstein, Bradley E., Levine, Ross L.

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Panorama Public: A Public Repository for Quantitative Data Sets Processed in Skyline von Sharma, Vagisha, Eckels, Josh, Schilling, Birgit, Ludwig, Christina, Jaffe, Jacob D., MacCoss, Michael J., MacLean, Brendan

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Integrated proteomic analysis of post-translational modifications by serial enrichment von Mertins, Philipp, Qiao, Jana W, Patel, Jinal, Udeshi, Namrata D, Clauser, Karl R, Mani, D R, Burgess, Michael W, Gillette, Michael A, Jaffe, Jacob D, Carr, Steven A

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Histone demethylase KDM6A directly senses oxygen to control chromatin and cell fate von Chakraborty, Abhishek A, Laukka, Tuomas, Myllykoski, Matti, Ringel, Alison E, Booker, Matthew A, Tolstorukov, Michael Y, Meng, Yuzhong Jeff, Meier, Samuel R, Jennings, Rebecca B, Creech, Amanda L, Herbert, Zachary T, McBrayer, Samuel K, Olenchock, Benjamin A, Jaffe, Jacob D, Haigis, Marcia C, Beroukhim, Rameen, Signoretti, Sabina, Koivunen, Peppi, Kaelin, Jr, William G

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A Curated Resource for Phosphosite-specific Signature Analysis[S] von Krug, Karsten, Mertins, Philipp, Zhang, Bin, Hornbeck, Peter, Raju, Rajesh, Ahmad, Rushdy, Szucs, Matthew, Mundt, Filip, Forestier, Dominique, Jane-Valbuena, Judit, Keshishian, Hasmik, Gillette, Michael A., Tamayo, Pablo, Mesirov, Jill P., Jaffe, Jacob D., Carr, StevenA, Mani, D.R.

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Developmental Control of Polycomb Subunit Composition by GATA Factors Mediates a Switch to Non-Canonical Functions von Xu, Jian, Shao, Zhen, Li, Dan, Xie, Huafeng, Kim, Woojin, Huang, Jialiang, Taylor, Jordan E., Pinello, Luca, Glass, Kimberly, Jaffe, Jacob D., Yuan, Guo-Cheng, Orkin, Stuart H.

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Deep, Quantitative Coverage of the Lysine Acetylome Using Novel Anti-acetyl-lysine Antibodies and an Optimized Proteomic Workflow[S] von Svinkina, Tanya, Gu, Hongbo, Silva, Jeffrey C., Mertins, Philipp, Qiao, Jana, Fereshetian, Shaunt, Jaffe, Jacob D., Kuhn, Eric, Udeshi, Namrata D., Carr, Steven A.

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High-fat diet fuels prostate cancer progression by rewiring the metabolome and amplifying the MYC program von Labbé, David P., Zadra, Giorgia, Yang, Meng, Reyes, Jaime M., Lin, Charles Y., Cacciatore, Stefano, Ebot, Ericka M., Creech, Amanda L., Giunchi, Francesca, Fiorentino, Michelangelo, Elfandy, Habiba, Syamala, Sudeepa, Karoly, Edward D., Alshalalfa, Mohammed, Erho, Nicholas, Ross, Ashley, Schaeffer, Edward M., Gibb, Ewan A., Takhar, Mandeep, Den, Robert B., Lehrer, Jonathan, Karnes, R. Jeffrey, Freedland, Stephen J., Davicioni, Elai, Spratt, Daniel E., Ellis, Leigh, Jaffe, Jacob D., DʼAmico, Anthony V., Kantoff, Philip W., Bradner, James E., Mucci, Lorelei A., Chavarro, Jorge E., Loda, Massimo, Brown, Myles

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Specter: linear deconvolution for targeted analysis of data-independent acquisition mass spectrometry proteomics von Peckner, Ryan, Myers, Samuel A, Jacome, Alvaro Sebastian Vaca, Egertson, Jarrett D, Abelin, Jennifer G, MacCoss, Michael J, Carr, Steven A, Jaffe, Jacob D

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Atg16L1 T300A variant decreases selective autophagy resulting in altered cytokine signaling and decreased antibacterial defense von Lassen, Kara G., Kuballa, Petric, Conway, Kara L., Patel, Khushbu K., Becker, Christine E., Peloquin, Joanna M., Villablanca, Eduardo J., Norman, Jason M., Liu, Ta-Chiang, Heath, Robert J., Becker, Morgan L., Fagbami, Lola, Horn, Heiko, Mercer, Johnathan, Yilmaz, Omer H., Jaffe, Jacob D., Shamji, Alykhan F., Bhan, Atul K., Carr, Steven A., Daly, Mark J., Virgin, Herbert W., Schreiber, Stuart L., Stappenbeck, Thaddeus S., Xavier, Ramnik J.

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iTRAQ Labeling is Superior to mTRAQ for Quantitative Global Proteomics and Phosphoproteomics von Mertins, Philipp, Udeshi, Namrata D., Clauser, Karl R., Mani, DR, Patel, Jinal, Ong, Shao-en, Jaffe, Jacob D., Carr, Steven A.

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JAK-STAT Signaling in Inflammatory Breast Cancer Enables Chemotherapy-Resistant Cell States von Stevens, Laura E, Peluffo, Guillermo, Qiu, Xintao, Temko, Daniel, Fassl, Anne, Li, Zheqi, Trinh, Anne, Seehawer, Marco, Jovanović, Bojana, Alečković, Maša, Wilde, Callahan M, Geck, Renee C, Shu, Shaokun, Kingston, Natalie L, Harper, Nicholas W, Almendro, Vanessa, Pyke, Alanna L, Egri, Shawn B, Papanastasiou, Malvina, Clement, Kendell, Zhou, Ningxuan, Walker, Sarah, Salas, Jacqueline, Park, So Yeon, Frank, David A, Meissner, Alexander, Jaffe, Jacob D, Sicinski, Piotr, Toker, Alex, Michor, Franziska, Long, Henry W, Overmoyer, Beth A, Polyak, Kornelia

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mSin1 Is Necessary for Akt/PKB Phosphorylation, and Its Isoforms Define Three Distinct mTORC2s von Frias, Maria A., Thoreen, Carson C., Jaffe, Jacob D., Schroder, Wayne, Sculley, Tom, Carr, Steven A., Sabatini, David M.

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Methods for Quantification of in vivo Changes in Protein Ubiquitination following Proteasome and Deubiquitinase Inhibition von Udeshi, Namrata D., Mani, D.R., Eisenhaure, Thomas, Mertins, Philipp, Jaffe, Jacob D., Clauser, Karl R., Hacohen, Nir, Carr, Steven A.

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Study of mitotic chromatin supports a model of bookmarking by histone modifications and reveals nucleosome deposition patterns von Javasky, Elisheva, Shamir, Inbal, Gandhi, Shashi, Egri, Shawn, Sandler, Oded, Rothbart, Scott B, Kaplan, Noam, Jaffe, Jacob D, Goren, Alon, Simon, Itamar

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Functional analysis of receptor tyrosine kinase mutations in lung cancer identifies oncogenic extracellular domain mutations of ERBB2 von Greulich, Heidi, Kaplan, Bethany, Mertins, Philipp, Chen, Tzu-Hsiu, Tanaka, Kumiko E, Yun, Cai-Hong, Zhang, Xiaohong, Lee, Se-Hoon, Cho, Jeonghee, Ambrogio, Lauren, Liao, Rachel, Imielinski, Marcin, Banerji, Shantanu, Berger, Alice H, Lawrence, Michael S, Zhang, Jinghui, Pho, Nam H, Walker, Sarah R, Winckler, Wendy, Getz, Gad, Frank, David, Hahn, William C, Eck, Michael J, Mani, D. R, Jaffe, Jacob D, Carr, Steven A, Wong, Kwok-Kin, Meyerson, Matthew

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Reduced-representation Phosphosignatures Measured by Quantitative Targeted MS Capture Cellular States and Enable Large-scale Comparison of Drug-induced Phenotypes von Abelin, Jennifer G., Patel, Jinal, Lu, Xiaodong, Feeney, Caitlin M., Fagbami, Lola, Creech, Amanda L., Hu, Roger, Lam, Daniel, Davison, Desiree, Pino, Lindsay, Qiao, Jana W., Kuhn, Eric, Officer, Adam, Li, Jianxue, Abbatiello, Susan, Subramanian, Aravind, Sidman, Richard, Snyder, Evan, Carr, Steven A., Jaffe, Jacob D.

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Mutations in MTFMT Underlie a Human Disorder of Formylation Causing Impaired Mitochondrial Translation von Tucker, Elena J., Hershman, Steven G., Köhrer, Caroline, Belcher-Timme, Casey A., Patel, Jinal, Goldberger, Olga A., Christodoulou, John, Silberstein, Jonathon M., McKenzie, Matthew, Ryan, Michael T., Compton, Alison G., Jaffe, Jacob D., Carr, Steven A., Calvo, Sarah E., RajBhandary, Uttam L., Thorburn, David R., Mootha, Vamsi K.

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Repeatability and Reproducibility in Proteomic Identifications by Liquid Chromatography−Tandem Mass Spectrometry von Tabb, David L, Vega-Montoto, Lorenzo, Rudnick, Paul A, Variyath, Asokan Mulayath, Ham, Amy-Joan L, Bunk, David M, Kilpatrick, Lisa E, Billheimer, Dean D, Blackman, Ronald K, Cardasis, Helene L, Carr, Steven A, Clauser, Karl R, Jaffe, Jacob D, Kowalski, Kevin A, Neubert, Thomas A, Regnier, Fred E, Schilling, Birgit, Tegeler, Tony J, Wang, Mu, Wang, Pei, Whiteaker, Jeffrey R, Zimmerman, Lisa J, Fisher, Susan J, Gibson, Bradford W, Kinsinger, Christopher R, Mesri, Mehdi, Rodriguez, Henry, Stein, Stephen E, Tempst, Paul, Paulovich, Amanda G, Liebler, Daniel C, Spiegelman, Cliff

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Plasticity in patterns of histone modifications and chromosomal proteins in Drosophila heterochromatin von Riddle, Nicole C, Minoda, Aki, Kharchenko, Peter V, Alekseyenko, Artyom A, Schwartz, Yuri B, Tolstorukov, Michael Y, Gorchakov, Andrey A, Jaffe, Jacob D, Kennedy, Cameron, Linder-Basso, Daniela, Peach, Sally E, Shanower, Gregory, Zheng, Haiyan, Kuroda, Mitzi I, Pirrotta, Vincenzo, Park, Peter J, Elgin, Sarah C R, Karpen, Gary H

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