Histone demethylase KDM6A directly senses oxygen to control chromatin and cell fate
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
Published in Science (American Association for the Advancement of Science) (15.03.2019)
Published in Science (American Association for the Advancement of Science) (15.03.2019)
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ASXL1 Mutations Promote Myeloid Transformation through Loss of PRC2-Mediated Gene Repression
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.
Published in Cancer cell (14.08.2012)
Published in Cancer cell (14.08.2012)
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Integrated proteomic analysis of post-translational modifications by serial enrichment
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
Published in Nature methods (01.07.2013)
Published in Nature methods (01.07.2013)
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A Curated Resource for Phosphosite-specific Signature Analysis[S]
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.
Published in Molecular & cellular proteomics (01.03.2019)
Published in Molecular & cellular proteomics (01.03.2019)
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Developmental Control of Polycomb Subunit Composition by GATA Factors Mediates a Switch to Non-Canonical Functions
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.
Published in Molecular cell (22.01.2015)
Published in Molecular cell (22.01.2015)
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Deep, Quantitative Coverage of the Lysine Acetylome Using Novel Anti-acetyl-lysine Antibodies and an Optimized Proteomic Workflow[S]
Svinkina, Tanya, Gu, Hongbo, Silva, Jeffrey C., Mertins, Philipp, Qiao, Jana, Fereshetian, Shaunt, Jaffe, Jacob D., Kuhn, Eric, Udeshi, Namrata D., Carr, Steven A.
Published in Molecular & cellular proteomics (01.09.2015)
Published in Molecular & cellular proteomics (01.09.2015)
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High-fat diet fuels prostate cancer progression by rewiring the metabolome and amplifying the MYC program
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
Published in Nature communications (25.09.2019)
Published in Nature communications (25.09.2019)
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Atg16L1 T300A variant decreases selective autophagy resulting in altered cytokine signaling and decreased antibacterial defense
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.
Published in Proceedings of the National Academy of Sciences - PNAS (27.05.2014)
Published in Proceedings of the National Academy of Sciences - PNAS (27.05.2014)
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Specter: linear deconvolution for targeted analysis of data-independent acquisition mass spectrometry proteomics
Peckner, Ryan, Myers, Samuel A, Jacome, Alvaro Sebastian Vaca, Egertson, Jarrett D, Abelin, Jennifer G, MacCoss, Michael J, Carr, Steven A, Jaffe, Jacob D
Published in Nature methods (01.05.2018)
Published in Nature methods (01.05.2018)
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JAK-STAT Signaling in Inflammatory Breast Cancer Enables Chemotherapy-Resistant Cell States
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
Published in Cancer research (Chicago, Ill.) (18.01.2023)
Published in Cancer research (Chicago, Ill.) (18.01.2023)
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iTRAQ Labeling is Superior to mTRAQ for Quantitative Global Proteomics and Phosphoproteomics
Mertins, Philipp, Udeshi, Namrata D., Clauser, Karl R., Mani, DR, Patel, Jinal, Ong, Shao-en, Jaffe, Jacob D., Carr, Steven A.
Published in Molecular & cellular proteomics (01.06.2012)
Published in Molecular & cellular proteomics (01.06.2012)
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Study of mitotic chromatin supports a model of bookmarking by histone modifications and reveals nucleosome deposition patterns
Javasky, Elisheva, Shamir, Inbal, Gandhi, Shashi, Egri, Shawn, Sandler, Oded, Rothbart, Scott B, Kaplan, Noam, Jaffe, Jacob D, Goren, Alon, Simon, Itamar
Published in Genome research (01.10.2018)
Published in Genome research (01.10.2018)
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Methods for Quantification of in vivo Changes in Protein Ubiquitination following Proteasome and Deubiquitinase Inhibition
Udeshi, Namrata D., Mani, D.R., Eisenhaure, Thomas, Mertins, Philipp, Jaffe, Jacob D., Clauser, Karl R., Hacohen, Nir, Carr, Steven A.
Published in Molecular & cellular proteomics (01.05.2012)
Published in Molecular & cellular proteomics (01.05.2012)
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Reduced-representation Phosphosignatures Measured by Quantitative Targeted MS Capture Cellular States and Enable Large-scale Comparison of Drug-induced Phenotypes
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.
Published in Molecular & cellular proteomics (01.05.2016)
Published in Molecular & cellular proteomics (01.05.2016)
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Functional analysis of receptor tyrosine kinase mutations in lung cancer identifies oncogenic extracellular domain mutations of ERBB2
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
Published in Proceedings of the National Academy of Sciences - PNAS (04.09.2012)
Published in Proceedings of the National Academy of Sciences - PNAS (04.09.2012)
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Mutations in MTFMT Underlie a Human Disorder of Formylation Causing Impaired Mitochondrial Translation
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.
Published in Cell metabolism (07.09.2011)
Published in Cell metabolism (07.09.2011)
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Repeatability and Reproducibility in Proteomic Identifications by Liquid Chromatography−Tandem Mass Spectrometry
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
Published in Journal of proteome research (05.02.2010)
Published in Journal of proteome research (05.02.2010)
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Plasticity in patterns of histone modifications and chromosomal proteins in Drosophila heterochromatin
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
Published in Genome research (01.02.2011)
Published in Genome research (01.02.2011)
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