Quantitative Proteomics Reveal a Feedforward Mechanism for Mitochondrial PARKIN Translocation and Ubiquitin Chain Synthesis von Ordureau, Alban, Sarraf, Shireen A., Duda, David M., Heo, Jin-Mi, Jedrychowski, Mark P., Sviderskiy, Vladislav O., Olszewski, Jennifer L., Koerber, James T., Xie, Tiao, Beausoleil, Sean A., Wells, James A., Gygi, Steven P., Schulman, Brenda A., Harper, J. Wade

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Human and mouse single-nucleus transcriptomics reveal TREM2-dependent and TREM2-independent cellular responses in Alzheimer’s disease von Zhou, Yingyue, Song, Wilbur M., Andhey, Prabhakar S., Swain, Amanda, Levy, Tyler, Miller, Kelly R., Poliani, Pietro L., Cominelli, Manuela, Grover, Shikha, Gilfillan, Susan, Cella, Marina, Ulland, Tyler K., Zaitsev, Konstantin, Miyashita, Akinori, Ikeuchi, Takeshi, Sainouchi, Makoto, Kakita, Akiyoshi, Bennett, David A., Schneider, Julie A., Nichols, Michael R., Beausoleil, Sean A., Ulrich, Jason D., Holtzman, David M., Artyomov, Maxim N., Colonna, Marco

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A Tissue-Specific Atlas of Mouse Protein Phosphorylation and Expression von Huttlin, Edward L., Jedrychowski, Mark P., Elias, Joshua E., Goswami, Tapasree, Rad, Ramin, Beausoleil, Sean A., Villén, Judit, Haas, Wilhelm, Sowa, Mathew E., Gygi, Steven P.

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Measurement of PIP3 Levels Reveals an Unexpected Role for p110β in Early Adaptive Responses to p110α-Specific Inhibitors in Luminal Breast Cancer von Costa, Carlotta, Ebi, Hiromichi, Martini, Miriam, Beausoleil, Sean A., Faber, Anthony C., Jakubik, Charles T., Huang, Alan, Wang, Youzhen, Nishtala, Madhuri, Hall, Ben, Rikova, Klarisa, Zhao, Jean, Hirsch, Emilio, Benes, Cyril H., Engelman, Jeffrey A.

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A probability-based approach for high-throughput protein phosphorylation analysis and site localization von Gygi, Steven P, Villén, Judit, Gerber, Scott A, Beausoleil, Sean A, Rush, John

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Immunoaffinity Enrichment and Mass Spectrometry Analysis of Protein Methylation von Guo, Ailan, Gu, Hongbo, Zhou, Jing, Mulhern, Daniel, Wang, Yi, Lee, Kimberly A., Yang, Vicky, Aguiar, Mike, Kornhauser, Jon, Jia, Xiaoying, Ren, Jianmin, Beausoleil, Sean A., Silva, Jeffrey C., Vemulapalli, Vidyasiri, Bedford, Mark T., Comb, Michael J.

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quantitative atlas of mitotic phosphorylation von Dephoure, Noah, Zhou, Chunshui, Villén, Judit, Beausoleil, Sean A, Bakalarski, Corey E, Elledge, Stephen J, Gygi, Steven P

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Large-scale phosphorylation analysis of mouse liver von Villén, Judit, Beausoleil, Sean A, Gerber, Scott A, Gygi, Steven P

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Highly Multiplexed Quantitative Mass Spectrometry Analysis of Ubiquitylomes von Rose, Christopher M., Isasa, Marta, Ordureau, Alban, Prado, Miguel A., Beausoleil, Sean A., Jedrychowski, Mark P., Finley, Daniel J., Harper, J. Wade, Gygi, Steven P.

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Systematic identification of anticancer drug targets reveals a nucleus-to-mitochondria ROS-sensing pathway von Zhang, Junbing, Simpson, Claire M., Berner, Jacqueline, Chong, Harrison B., Fang, Jiafeng, Ordulu, Zehra, Weiss-Sadan, Tommy, Possemato, Anthony P., Harry, Stefan, Takahashi, Mariko, Yang, Tzu-yi, Richter, Marianne, Patel, Himani, Smith, Abby E., Carlin, Alexander D., Hubertus de Groot, Adriaan F., Wolf, Konstantin, Shi, Lei, Wei, Ting-Yu, Dürr, Benedikt R., Chen, Nicholas J., Vornbäumen, Tristan, Wichmann, Nina O., Mahamdeh, Mohammed S., Pooladanda, Venkatesh, Matoba, Yusuke, Kumar, Shaan, Kim, Eugene, Bouberhan, Sara, Oliva, Esther, Rueda, Bo R., Soberman, Roy J., Bardeesy, Nabeel, Liau, Brian B., Lawrence, Michael, Stokes, Matt P., Beausoleil, Sean A., Bar-Peled, Liron

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Phosphoproteome Analysis of Drosophila melanogaster Embryos von Zhai, Bo, Villén, Judit, Beausoleil, Sean A, Mintseris, Julian, Gygi, Steven P

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Multiplexed Phosphoproteomic Profiling Using Titanium Dioxide and Immunoaffinity Enrichments Reveals Complementary Phosphorylation Events von Possemato, Anthony P, Paulo, Joao A, Mulhern, Daniel, Guo, Ailan, Gygi, Steven P, Beausoleil, Sean A

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Large-Scale Characterization of HeLa Cell Nuclear Phosphoproteins von Beausoleil, Sean A., Jedrychowski, Mark, Schwartz, Daniel, Elias, Joshua E., Villén, Judit, Li, Jiaxu, Cohn, Martin A., Cantley, Lewis C., Gygi, Steven P.

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A multi-purpose, regenerable, proteome-scale, human phosphoserine resource for phosphoproteomics von Gassaway, Brandon M., Li, Jiaming, Rad, Ramin, Mintseris, Julian, Mohler, Kyle, Levy, Tyler, Aguiar, Mike, Beausoleil, Sean A., Paulo, Joao A., Rinehart, Jesse, Huttlin, Edward L., Gygi, Steven P.

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A proteomics approach for the identification and cloning of monoclonal antibodies from serum von Cheung, Wan Cheung, Beausoleil, Sean A, Zhang, Xiaowu, Sato, Shuji, Schieferl, Sandra M, Wieler, James S, Beaudet, Jason G, Ramenani, Ravi K, Popova, Lana, Comb, Michael J, Rush, John, Polakiewicz, Roberto D

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Effects of MEK inhibitors GSK1120212 and PD0325901 in vivo using 10-plex quantitative proteomics and phosphoproteomics von Paulo, Joao A., McAllister, Fiona E., Everley, Robert A., Beausoleil, Sean A., Banks, Alexander S., Gygi, Steven P.

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Profiling of UV-induced ATM/ATR signaling pathways von Stokes, Matthew P, Rush, John, MacNeill, Joan, Ren, Jian Min, Sprott, Kam, Nardone, Julie, Yang, Vicky, Beausoleil, Sean A, Gygi, Steven P, Livingstone, Mark, Zhang, Hui, Polakiewicz, Roberto D, Comb, Michael J

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Phosphoproteomic Analysis of the Developing Mouse Brain von Ballif, Bryan A., Villén, Judit, Beausoleil, Sean A., Schwartz, Daniel, Gygi, Steven P.

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Disrupting Protein NEDDylation with MLN4924 Is a Novel Strategy to Target Cisplatin Resistance in Ovarian Cancer von NAWROCKI, Steffan T, KELLY, Kevin R, CAREW, Jennifer S, SMITH, Peter G, ESPITIA, Claudia M, POSSEMATO, Anthony, BEAUSOLEIL, Sean A, MILHOLLEN, Michael, BLAKEMORE, Stephen, THOMAS, Michael, BERGER, Allison

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Optimization and Use of Peptide Mass Measurement Accuracy in Shotgun Proteomics von Haas, Wilhelm, Faherty, Brendan K, Gerber, Scott A, Elias, Joshua E, Beausoleil, Sean A, Bakalarski, Corey E, Li, Xue, Villén, Judit, Gygi, Steven P

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