Systematic Functional Prioritization of Protein Posttranslational Modifications von Beltrao, Pedro, Albanèse, Véronique, Kenner, Lillian R., Swaney, Danielle L., Burlingame, Alma, Villén, Judit, Lim, Wendell A., Fraser, James S., Frydman, Judith, Krogan, Nevan J.

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The functional landscape of the human phosphoproteome von Ochoa, David, Jarnuczak, Andrew F., Viéitez, Cristina, Gehre, Maja, Soucheray, Margaret, Mateus, André, Kleefeldt, Askar A., Hill, Anthony, Garcia-Alonso, Luz, Stein, Frank, Krogan, Nevan J., Savitski, Mikhail M., Swaney, Danielle L., Vizcaíno, Juan A., Noh, Kyung-Min, Beltrao, Pedro

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Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation von Swaney, Danielle L, Beltrao, Pedro, Starita, Lea, Guo, Ailan, Rush, John, Fields, Stanley, Krogan, Nevan J, Villén, Judit

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The AMBRA1 E3 ligase adaptor regulates the stability of cyclin D von Chaikovsky, Andrea C., Li, Chuan, Jeng, Edwin E., Loebell, Samuel, Lee, Myung Chang, Murray, Christopher W., Cheng, Ran, Demeter, Janos, Swaney, Danielle L., Chen, Si-Han, Newton, Billy W., Johnson, Jeffrey R., Drainas, Alexandros P., Shue, Yan Ting, Seoane, Jose A., Srinivasan, Preethi, He, Andy, Yoshida, Akihiro, Hipkins, Susan Q., McCrea, Edel, Poltorack, Carson D., Krogan, Nevan J., Diehl, J. Alan, Kong, Christina, Jackson, Peter K., Curtis, Christina, Petrov, Dmitri A., Bassik, Michael C., Winslow, Monte M., Sage, Julien

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Systematic Identification of Host Cell Regulators of Legionella pneumophila Pathogenesis Using a Genome-wide CRISPR Screen von Jeng, Edwin E., Bhadkamkar, Varun, Ibe, Nnejiuwa U., Gause, Haley, Jiang, Lihua, Chan, Joanne, Jian, Ruiqi, Jimenez-Morales, David, Stevenson, Erica, Krogan, Nevan J., Swaney, Danielle L., Snyder, Michael P., Mukherjee, Shaeri, Bassik, Michael C.

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Phosphorylation of ubiquitin at Ser65 affects its polymerization, targets, and proteome-wide turnover von Swaney, Danielle L, Rodríguez-Mias, Ricard A, Villén, Judit

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Evolution of protein phosphorylation across 18 fungal species von Studer, Romain A., Rodriguez-Mias, Ricard A., Haas, Kelsey M., Hsu, Joanne I., Viéitez, Cristina, Solé, Carme, Swaney, Danielle L., Stanford, Lindsay B., Liachko, Ivan, Böttcher, René, Dunham, Maitreya J., de Nadal, Eulàlia, Posas, Francesc, Beltrao, Pedro, Villén, Judit

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Unbiased Proteomic Profiling Uncovers a Targetable GNAS/PKA/PP2A Axis in Small Cell Lung Cancer Stem Cells von Coles, Garry L., Cristea, Sandra, Webber, James T., Levin, Rebecca S., Moss, Steven M., He, Andy, Sangodkar, Jaya, Hwang, Yeonjoo C., Arand, Julia, Drainas, Alexandros P., Mooney, Nancie A., Demeter, Janos, Spradlin, Jessica N., Mauch, Brandon, Le, Vicky, Shue, Yan Ting, Ko, Julie H., Lee, Myung Chang, Kong, Christina, Nomura, Daniel K., Ohlmeyer, Michael, Swaney, Danielle L., Krogan, Nevan J., Jackson, Peter K., Narla, Goutham, Gordan, John D., Shokat, Kevan M., Sage, Julien

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A protein network map of head and neck cancer reveals PIK3CA mutant drug sensitivity von Swaney, Danielle L., Ramms, Dana J., Wang, Zhiyong, Park, Jisoo, Goto, Yusuke, Soucheray, Margaret, Bhola, Neil, Kim, Kyumin, Zheng, Fan, Zeng, Yan, McGregor, Michael, Herrington, Kari A., O'Keefe, Rachel, Jin, Nan, VanLandingham, Nathan K., Foussard, Helene, Von Dollen, John, Bouhaddou, Mehdi, Jimenez-Morales, David, Obernier, Kirsten, Kreisberg, Jason F., Kim, Minkyu, Johnson, Daniel E., Jura, Natalia, Grandis, Jennifer R., Gutkind, J. Silvio, Ideker, Trey, Krogan, Nevan J.

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Next-generation proteomics for quantitative Jumbophage-bacteria interaction mapping von Fossati, Andrea, Mozumdar, Deepto, Kokontis, Claire, Mèndez-Moran, Melissa, Nieweglowska, Eliza, Pelin, Adrian, Li, Yuping, Guo, Baron, Krogan, Nevan J., Agard, David A., Bondy-Denomy, Joseph, Swaney, Danielle L.

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Proteomic and phosphoproteomic comparison of human ES and iPS cells von Phanstiel, Douglas H, Brumbaugh, Justin, Wenger, Craig D, Tian, Shulan, Probasco, Mitchell D, Bailey, Derek J, Swaney, Danielle L, Tervo, Mark A, Bolin, Jennifer M, Ruotti, Victor, Stewart, Ron, Thomson, James A, Coon, Joshua J

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Human embryonic stem cell phosphoproteome revealed by electron transfer dissociation tandem mass spectrometry von Swaney, Danielle L, Wenger, Craig D, Thomson, James A, Coon, Joshua J

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Proteome Imbalance of Mitochondrial Electron Transport Chain in Brown Adipocytes Leads to Metabolic Benefits von Masand, Ruchi, Paulo, Esther, Wu, Dongmei, Wang, Yangmeng, Swaney, Danielle L., Jimenez-Morales, David, Krogan, Nevan J., Wang, Biao

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Therapeutic implications of activating noncanonical PIK3CA mutations in head and neck squamous cell carcinoma von Jin, Nan, Keam, Bhumsuk, Cho, Janice, Lee, Michelle J., Kim, Hye Ryun, Torosyan, Hayarpi, Jura, Natalia, Ng, Patrick Ks, Mills, Gordon B., Li, Hua, Zeng, Yan, Barbash, Zohar, Tarcic, Gabi, Kang, Hyunseok, Bauman, Julie E., Kim, Mi-Ok, VanLandingham, Nathan K., Swaney, Danielle L., Krogan, Nevan J., Johnson, Daniel E., Grandis, Jennifer R.

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Multiple Routes to Oncogenesis Are Promoted by the Human Papillomavirus-Host Protein Network von Eckhardt, Manon, Zhang, Wei, Gross, Andrew M, Von Dollen, John, Johnson, Jeffrey R, Franks-Skiba, Kathleen E, Swaney, Danielle L, Johnson, Tasha L, Jang, Gwendolyn M, Shah, Priya S, Brand, Toni M, Archambault, Jacques, Kreisberg, Jason F, Grandis, Jennifer R, Ideker, Trey, Krogan, Nevan J

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Supplemental Activation Method for High-Efficiency Electron-Transfer Dissociation of Doubly Protonated Peptide Precursors von Swaney, Danielle L, McAlister, Graeme C, Wirtala, Matthew, Schwartz, Jae C, Syka, John E. P, Coon, Joshua J

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Resistance to ATR Inhibitors Is Mediated by Loss of the Nonsense-Mediated Decay Factor UPF2 von O'Leary, Patrick C, Chen, Huadong, Doruk, Yagmur U, Williamson, Tess, Polacco, Benjamin, McNeal, Andrew S, Shenoy, Tanushree, Kale, Nupura, Carnevale, Julia, Stevenson, Erica, Quigley, David A, Chou, Jonathan, Feng, Felix Y, Swaney, Danielle L, Krogan, Nevan J, Kim, Minkyu, Diolaiti, Morgan E, Ashworth, Alan

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Brown adipocyte ATF4 activation improves thermoregulation and systemic metabolism von Paulo, Esther, Zhang, Yun, Masand, Ruchi, Huynh, Tony L., Seo, Youngho, Swaney, Danielle L., Soucheray, Margaret, Stevenson, Erica, Jimenez-Morales, David, Krogan, Nevan J., Wang, Biao

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MerlinS13 phosphorylation regulates meningioma Wnt signaling and magnetic resonance imaging features von Eaton, Charlotte D., Avalos, Lauro, Liu, S. John, Chen, Zhenhong, Zakimi, Naomi, Casey-Clyde, Tim, Bisignano, Paola, Lucas, Calixto-Hope G., Stevenson, Erica, Choudhury, Abrar, Vasudevan, Harish N., Magill, Stephen T., Young, Jacob S., Krogan, Nevan J., Villanueva-Meyer, Javier E., Swaney, Danielle L., Raleigh, David R.

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The kinase Isr1 negatively regulates hexosamine biosynthesis in S. cerevisiae von Alme, Emma B, Stevenson, Erica, Krogan, Nevan J, Swaney, Danielle L, Toczyski, David P

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