Characterization and Optimization of Multiplexed Quantitative Analyses Using High-Field Asymmetric-Waveform Ion Mobility Mass Spectrometry
Schweppe, Devin K, Prasad, Satendra, Belford, Michael W, Navarrete-Perea, José, Bailey, Derek J, Huguet, Romain, Jedrychowski, Mark P, Rad, Ramin, McAlister, Graeme, Abbatiello, Susan E, Woulters, Eloy R, Zabrouskov, Vlad, Dunyach, Jean-Jacques, Paulo, João A, Gygi, Steven P
Published in Analytical chemistry (Washington) (19.03.2019)
Published in Analytical chemistry (Washington) (19.03.2019)
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Streamlined Tandem Mass Tag (SL-TMT) Protocol: An Efficient Strategy for Quantitative (Phospho)proteome Profiling Using Tandem Mass Tag-Synchronous Precursor Selection-MS3
Navarrete-Perea, José, Yu, Qing, Gygi, Steven P, Paulo, Joao A
Published in Journal of proteome research (01.06.2018)
Published in Journal of proteome research (01.06.2018)
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Journal Article
Detection and Quantitation of Circulating Human Irisin by Tandem Mass Spectrometry
Jedrychowski, Mark P., Wrann, Christiane D., Paulo, Joao A., Gerber, Kaitlyn K., Szpyt, John, Robinson, Matthew M., Nair, K. Sreekumaran, Gygi, Steven P., Spiegelman, Bruce M.
Published in Cell metabolism (06.10.2015)
Published in Cell metabolism (06.10.2015)
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Journal Article
Systematic quantitative analysis of ribosome inventory during nutrient stress
An, Heeseon, Ordureau, Alban, Körner, Maria, Paulo, Joao A., Harper, J. Wade
Published in Nature (London) (09.07.2020)
Published in Nature (London) (09.07.2020)
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Journal Article
Global Landscape and Dynamics of Parkin and USP30-Dependent Ubiquitylomes in iNeurons during Mitophagic Signaling
Ordureau, Alban, Paulo, Joao A., Zhang, Jiuchun, An, Heeseon, Swatek, Kirby N., Cannon, Joe R., Wan, Qiaoqiao, Komander, David, Harper, J. Wade
Published in Molecular cell (05.03.2020)
Published in Molecular cell (05.03.2020)
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Journal Article
Dual proteome-scale networks reveal cell-specific remodeling of the human interactome
Huttlin, Edward L., Bruckner, Raphael J., Navarrete-Perea, Jose, Cannon, Joe R., Baltier, Kurt, Gebreab, Fana, Gygi, Melanie P., Thornock, Alexandra, Zarraga, Gabriela, Tam, Stanley, Szpyt, John, Gassaway, Brandon M., Panov, Alexandra, Parzen, Hannah, Fu, Sipei, Golbazi, Arvene, Maenpaa, Eila, Stricker, Keegan, Guha Thakurta, Sanjukta, Zhang, Tian, Rad, Ramin, Pan, Joshua, Nusinow, David P., Paulo, Joao A., Schweppe, Devin K., Vaites, Laura Pontano, Harper, J. Wade, Gygi, Steven P.
Published in Cell (27.05.2021)
Published in Cell (27.05.2021)
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Full-Featured, Real-Time Database Searching Platform Enables Fast and Accurate Multiplexed Quantitative Proteomics
Schweppe, Devin K, Eng, Jimmy K, Yu, Qing, Bailey, Derek, Rad, Ramin, Navarrete-Perea, Jose, Huttlin, Edward L, Erickson, Brian K, Paulo, Joao A, Gygi, Steven P
Published in Journal of proteome research (01.05.2020)
Published in Journal of proteome research (01.05.2020)
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Journal Article
Multidimensional Tracking of GPCR Signaling via Peroxidase-Catalyzed Proximity Labeling
Paek, Jaeho, Kalocsay, Marian, Staus, Dean P., Wingler, Laura, Pascolutti, Roberta, Paulo, Joao A., Gygi, Steven P., Kruse, Andrew C.
Published in Cell (06.04.2017)
Published in Cell (06.04.2017)
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Journal Article
TMTpro reagents: a set of isobaric labeling mass tags enables simultaneous proteome-wide measurements across 16 samples
Li, Jiaming, Van Vranken, Jonathan G., Pontano Vaites, Laura, Schweppe, Devin K., Huttlin, Edward L., Etienne, Chris, Nandhikonda, Premchendar, Viner, Rosa, Robitaille, Aaron M., Thompson, Andrew H., Kuhn, Karsten, Pike, Ian, Bomgarden, Ryan D., Rogers, John C., Gygi, Steven P., Paulo, Joao A.
Published in Nature methods (01.04.2020)
Published in Nature methods (01.04.2020)
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Journal Article
Proteome-wide mapping of short-lived proteins in human cells
Li, Jiaming, Cai, Zhenying, Vaites, Laura Pontano, Shen, Ning, Mitchell, Dylan C., Huttlin, Edward L., Paulo, Joao A., Harry, Brian L., Gygi, Steven P.
Published in Molecular cell (18.11.2021)
Published in Molecular cell (18.11.2021)
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Journal Article
Architecture of the human interactome defines protein communities and disease networks
Huttlin, Edward L., Bruckner, Raphael J., Paulo, Joao A., Cannon, Joe R., Ting, Lily, Baltier, Kurt, Colby, Greg, Gebreab, Fana, Gygi, Melanie P., Parzen, Hannah, Szpyt, John, Tam, Stanley, Zarraga, Gabriela, Pontano-Vaites, Laura, Swarup, Sharan, White, Anne E., Schweppe, Devin K., Rad, Ramin, Erickson, Brian K., Obar, Robert A., Guruharsha, K. G., Li, Kejie, Artavanis-Tsakonas, Spyros, Gygi, Steven P., Harper, J. Wade
Published in Nature (London) (25.05.2017)
Published in Nature (London) (25.05.2017)
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Systematic Analysis of Human Cells Lacking ATG8 Proteins Uncovers Roles for GABARAPs and the CCZ1/MON1 Regulator C18orf8/RMC1 in Macroautophagic and Selective Autophagic Flux
Vaites, Laura Pontano, Paulo, Joao A., Huttlin, Edward L., Harper, J. Wade
Published in Molecular and cellular biology (01.01.2018)
Published in Molecular and cellular biology (01.01.2018)
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Journal Article
Defining roles of PARKIN and ubiquitin phosphorylation by PINK1 in mitochondrial quality control using a ubiquitin replacement strategy
Ordureau, Alban, Heo, Jin-Mi, Duda, David M., Paulo, Joao A., Olszewski, Jennifer L., Yanishevski, David, Rinehart, Jesse, Schulman, Brenda A., Harper, J. Wade
Published in Proceedings of the National Academy of Sciences - PNAS (26.05.2015)
Published in Proceedings of the National Academy of Sciences - PNAS (26.05.2015)
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Journal Article
pH-Gated Succinate Secretion Regulates Muscle Remodeling in Response to Exercise
Reddy, Anita, Bozi, Luiz H.M., Yaghi, Omar K., Mills, Evanna L., Xiao, Haopeng, Nicholson, Hilary E., Paschini, Margherita, Paulo, Joao A., Garrity, Ryan, Laznik-Bogoslavski, Dina, Ferreira, Julio C.B., Carl, Christian S., Sjøberg, Kim A., Wojtaszewski, Jørgen F.P., Jeppesen, Jacob F., Kiens, Bente, Gygi, Steven P., Richter, Erik A., Mathis, Diane, Chouchani, Edward T.
Published in Cell (01.10.2020)
Published in Cell (01.10.2020)
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Compensatory metabolic networks in pancreatic cancers upon perturbation of glutamine metabolism
Biancur, Douglas E., Paulo, Joao A., Małachowska, Beata, Quiles Del Rey, Maria, Sousa, Cristovão M., Wang, Xiaoxu, Sohn, Albert S. W., Chu, Gerald C., Gygi, Steven P., Harper, J. Wade, Fendler, Wojciech, Mancias, Joseph D., Kimmelman, Alec C.
Published in Nature communications (03.07.2017)
Published in Nature communications (03.07.2017)
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Journal Article
The BioPlex Network: A Systematic Exploration of the Human Interactome
Huttlin, Edward L., Ting, Lily, Bruckner, Raphael J., Gebreab, Fana, Gygi, Melanie P., Szpyt, John, Tam, Stanley, Zarraga, Gabriela, Colby, Greg, Baltier, Kurt, Dong, Rui, Guarani, Virginia, Vaites, Laura Pontano, Ordureau, Alban, Rad, Ramin, Erickson, Brian K., Wühr, Martin, Chick, Joel, Zhai, Bo, Kolippakkam, Deepak, Mintseris, Julian, Obar, Robert A., Harris, Tim, Artavanis-Tsakonas, Spyros, Sowa, Mathew E., De Camilli, Pietro, Paulo, Joao A., Harper, J. Wade, Gygi, Steven P.
Published in Cell (16.07.2015)
Published in Cell (16.07.2015)
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Journal Article
Autophagy is required for proper cysteine homeostasis in pancreatic cancer through regulation of SLC7A11
Mukhopadhyay, Subhadip, Biancur, Douglas E, Parker, Seth J, Yamamoto, Keisuke, Banh, Robert S, Paulo, Joao A, Mancias, Joseph D, Kimmelman, Alec C
Published in Proceedings of the National Academy of Sciences - PNAS (09.02.2021)
Published in Proceedings of the National Academy of Sciences - PNAS (09.02.2021)
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Journal Article
Native Chromatin Proteomics Reveals a Role for Specific Nucleoporins in Heterochromatin Organization and Maintenance
Iglesias, Nahid, Paulo, Joao A., Tatarakis, Antonis, Wang, Xiaoyi, Edwards, Amanda L., Bhanu, Natarajan V., Garcia, Benjamin A., Haas, Wilhelm, Gygi, Steven P., Moazed, Danesh
Published in Molecular cell (02.01.2020)
Published in Molecular cell (02.01.2020)
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