Efficient flexible backbone protein–protein docking for challenging targets
Marze, Nicholas A, Roy Burman, Shourya S, Sheffler, William, Gray, Jeffrey J
Published in Bioinformatics (15.10.2018)
Published in Bioinformatics (15.10.2018)
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Journal Article
Structural basis of regulated m7G tRNA modification by METTL1–WDR4
Li, Jiazhi, Wang, Longfei, Hahn, Quentin, Nowak, Radosław P., Viennet, Thibault, Orellana, Esteban A., Roy Burman, Shourya S., Yue, Hong, Hunkeler, Moritz, Fontana, Pietro, Wu, Hao, Arthanari, Haribabu, Fischer, Eric S., Gregory, Richard I.
Published in Nature (London) (12.01.2023)
Published in Nature (London) (12.01.2023)
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Journal Article
Small-molecule-induced polymerization triggers degradation of BCL6
Słabicki, Mikołaj, Yoon, Hojong, Koeppel, Jonas, Nitsch, Lena, Roy Burman, Shourya S, Di Genua, Cristina, Donovan, Katherine A, Sperling, Adam S, Hunkeler, Moritz, Tsai, Jonathan M, Sharma, Rohan, Guirguis, Andrew, Zou, Charles, Chudasama, Priya, Gasser, Jessica A, Miller, Peter G, Scholl, Claudia, Fröhling, Stefan, Nowak, Radosław P, Fischer, Eric S, Ebert, Benjamin L
Published in Nature (London) (03.12.2020)
Published in Nature (London) (03.12.2020)
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Serological testing for SARS-CoV-2 antibodies of employees shows low transmission working in a cancer center
Meyerhardt, Jeffrey A, Yue, Hong, Nowak, Radosław P, Brais, Lauren, Ma, Chao, Johnson, Samantha, Harrod, Joanna, Burman, Shourya S Roy, Hendrickson, Lynn M, Fischinger, Stephanie, Alter, Galit, Hahn, William, Johnson, Bruce E, Fischer, Eric S
Published in PloS one (12.04.2022)
Published in PloS one (12.04.2022)
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Targeting the CoREST complex with dual histone deacetylase and demethylase inhibitors
Kalin, Jay H, Wu, Muzhou, Gomez, Andrea V, Song, Yun, Das, Jayanta, Hayward, Dawn, Adejola, Nkosi, Wu, Mingxuan, Panova, Izabela, Chung, Hye Jin, Kim, Edward, Roberts, Holly J, Roberts, Justin M, Prusevich, Polina, Jeliazkov, Jeliazko R, Roy Burman, Shourya S, Fairall, Louise, Milano, Charles, Eroglu, Abdulkerim, Proby, Charlotte M, Dinkova-Kostova, Albena T, Hancock, Wayne W, Gray, Jeffrey J, Bradner, James E, Valente, Sergio, Mai, Antonello, Anders, Nicole M, Rudek, Michelle A, Hu, Yong, Ryu, Byungwoo, Schwabe, John W R, Mattevi, Andrea, Alani, Rhoda M, Cole, Philip A
Published in Nature communications (04.01.2018)
Published in Nature communications (04.01.2018)
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Journal Article
Polymerization of ZBTB transcription factors regulates chromatin occupancy
Park, Paul M.C., Park, Jiho, Brown, Jared, Hunkeler, Moritz, Roy Burman, Shourya S., Donovan, Katherine A., Yoon, Hojong, Nowak, Radosław P., Słabicki, Mikołaj, Ebert, Benjamin L., Fischer, Eric S.
Published in Molecular cell (11.07.2024)
Published in Molecular cell (11.07.2024)
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Journal Article
Flexible Backbone Assembly and Refinement of Symmetrical Homomeric Complexes
Roy Burman, Shourya S., Yovanno, Remy A., Gray, Jeffrey J.
Published in Structure (London) (04.06.2019)
Published in Structure (London) (04.06.2019)
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Journal Article
Continuous evolution of compact protein degradation tags regulated by selective molecular glues
Mercer, Jaron A M, DeCarlo, Stephan J, Roy Burman, Shourya S, Sreekanth, Vedagopuram, Nelson, Andrew T, Hunkeler, Moritz, Chen, Peter J, Donovan, Katherine A, Kokkonda, Praveen, Tiwari, Praveen K, Shoba, Veronika M, Deb, Arghya, Choudhary, Amit, Fischer, Eric S, Liu, David R
Published in Science (American Association for the Advancement of Science) (15.03.2024)
Published in Science (American Association for the Advancement of Science) (15.03.2024)
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Journal Article
Targeting DCAF5 suppresses SMARCB1-mutant cancer by stabilizing SWI/SNF
Radko-Juettner, Sandi, Yue, Hong, Myers, Jacquelyn A, Carter, Raymond D, Robertson, Alexis N, Mittal, Priya, Zhu, Zhexin, Hansen, Baranda S, Donovan, Katherine A, Hunkeler, Moritz, Rosikiewicz, Wojciech, Wu, Zhiping, McReynolds, Meghan G, Roy Burman, Shourya S, Schmoker, Anna M, Mageed, Nada, Brown, Scott A, Mobley, Robert J, Partridge, Janet F, Stewart, Elizabeth A, Pruett-Miller, Shondra M, Nabet, Behnam, Peng, Junmin, Gray, Nathanael S, Fischer, Eric S, Roberts, Charles W M
Published in Nature (London) (11.04.2024)
Published in Nature (London) (11.04.2024)
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Journal Article
Novel sampling strategies and a coarse‐grained score function for docking homomers, flexible heteromers, and oligosaccharides using Rosetta in CAPRI rounds 37–45
Roy Burman, Shourya S., Nance, Morgan L., Jeliazkov, Jeliazko R., Labonte, Jason W., Lubin, Joseph H., Biswas, Naireeta, Gray, Jeffrey J.
Published in Proteins, structure, function, and bioinformatics (01.08.2020)
Published in Proteins, structure, function, and bioinformatics (01.08.2020)
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Journal Article
Modeling oblong proteins and water‐mediated interfaces with RosettaDock in CAPRI rounds 28–35
Marze, Nicholas A., Jeliazkov, Jeliazko R., Roy Burman, Shourya S., Boyken, Scott E., DiMaio, Frank, Gray, Jeffrey J.
Published in Proteins, structure, function, and bioinformatics (01.03.2017)
Published in Proteins, structure, function, and bioinformatics (01.03.2017)
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Journal Article
Machine Learning Modeling of Protein-intrinsic Features Predicts Tractability of Targeted Protein Degradation
Zhang, Wubing, Roy Burman, Shourya S., Chen, Jiaye, Donovan, Katherine A., Cao, Yang, Shu, Chelsea, Zhang, Boning, Zeng, Zexian, Gu, Shengqing, Zhang, Yi, Li, Dian, Fischer, Eric S., Tokheim, Collin, Shirley Liu, X.
Published in Genomics, proteomics & bioinformatics (01.10.2022)
Published in Genomics, proteomics & bioinformatics (01.10.2022)
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Journal Article
The human E3 ligase RNF185 is a regulator of the SARS-CoV-2 envelope protein
Zou, Charles, Yoon, Hojong, Park, Paul M.C., Patten, J.J., Pellman, Jesse, Carreiro, Jeannie, Tsai, Jonathan M., Li, Yen-Der, Roy Burman, Shourya S., Donovan, Katherine A., Gasser, Jessica, Sperling, Adam S., Nowak, Radosław P., Fischer, Eric S., Davey, Robert A., Ebert, Benjamin L., Słabicki, Mikołaj
Published in iScience (19.05.2023)
Published in iScience (19.05.2023)
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Journal Article
Getting insights from the voices of customers: Conversation mining at a contact center
Takeuchi, Hironori, Subramaniam, L. Venkata, Nasukawa, Tetsuya, Roy, Shourya
Published in Information sciences (13.05.2009)
Published in Information sciences (13.05.2009)
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Journal Article
Macromolecular modeling and design in Rosetta: recent methods and frameworks
Weitzner, Brian D, Lewis, Steven M, Adolf-Bryfogle, Jared, Alam, Nawsad, Alford, Rebecca F, Aprahamian, Melanie, Baker, David, Barlow, Kyle A, Barth, Patrick, Bender, Brian J, Blacklock, Kristin, Bonet, Jaume, Boyken, Scott E, Bradley, Phil, Bystroff, Chris, Conway, Patrick, Cooper, Seth, Coventry, Brian, Das, Rhiju, De Jong, René M, Dsilva, Lorna, Dunbrack, Roland, Ford, Alexander S, Frenz, Brandon, Fu, Darwin Y, Geniesse, Caleb, Goldschmidt, Lukasz, Gowthaman, Ragul, Gray, Jeffrey J, Gront, Dominik, Guffy, Sharon, Horowitz, Scott, Huang, Po-Ssu, Huber, Thomas, Jacobs, Tim M, Jeliazkov, Jeliazko R, Johnson, David K, Kappel, Kalli, Karanicolas, John, Khakzad, Hamed, Khar, Karen R, Khare, Sagar D, Khatib, Firas, Khramushin, Alisa, King, Indigo C, Kleffner, Robert, Koepnick, Brian, Kortemme, Tanja, Kuenze, Georg, Kuhlman, Brian, Kuroda, Daisuke, Labonte, Jason W, Lai, Jason K, Lapidoth, Gideon, Leaver-Fay, Andrew, Lindert, Steffen, Linsky, Thomas, London, Nir, Lubin, Joseph H, Lyskov, Sergey, Maguire, Jack, Malmström, Lars, Marcos, Enrique, Marcu, Orly, Marze, Nicholas A, Meiler, Jens, Moretti, Rocco, Nerli, Santrupti, Norn, Christoffer, Ó'Conchúir, Shane, Ollikainen, Noah, Ovchinnikov, Sergey, Pacella, Michael S, Pan, Xingjie, Park, Hahnbeom, Pavlovicz, Ryan E, Pethe, Manasi, Pierce, Brian G, Pilla, Kala Bharath, Raveh, Barak, Renfrew, P Douglas, Burman, Shourya S Roy, Sauer, Marion F, Scheck, Andreas, Schief, William, Schueler-Furman, Ora, Sedan, Yuval, Sevy, Alexander M, Sgourakis, Nikolaos G, Silva, Daniel-Adriano, Smith, Shannon, Song, Yifan, Stein, Amelie, Szegedy, Maria, Teets, Frank D, Thyme, Summer B, Wang, Ray Yu-Ruei, Watkins, Andrew, Zimmerman, Lior, Bonneau, Richard
Published in Nature methods (01.07.2020)
Published in Nature methods (01.07.2020)
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Prediction of homoprotein and heteroprotein complexes by protein docking and template-based modeling: A CASP-CAPRI experiment
Lensink, Marc F., Velankar, Sameer, Kryshtafovych, Andriy, Huang, Shen-You, Schneidman-Duhovny, Dina, Segura, Joan, Fernandez-Fuentes, Narcis, Viswanath, Shruthi, Elber, Ron, Grudinin, Sergei, Popov, Petr, Neveu, Emilie, Lee, Hasup, Baek, Minkyung, Park, Sangwoo, Heo, Lim, Rie Lee, Gyu, Seok, Chaok, Qin, Sanbo, Zhou, Huan-Xiang, Ritchie, David W., Maigret, Bernard, Devignes, Marie-Dominique, Ghoorah, Anisah, Torchala, Mieczyslaw, Chaleil, Raphaël A.G., Bates, Paul A., Ben-Zeev, Efrat, Eisenstein, Miriam, Negi, Surendra S., Weng, Zhiping, Vreven, Thom, Pierce, Brian G., Borrman, Tyler M., Yu, Jinchao, Ochsenbein, Françoise, Guerois, Raphaël, Vangone, Anna, Rodrigues, João P.G.L.M., van Zundert, Gydo, Nellen, Mehdi, Xue, Li, Karaca, Ezgi, Melquiond, Adrien S.J., Visscher, Koen, Kastritis, Panagiotis L., Bonvin, Alexandre M.J.J., Xu, Xianjin, Qiu, Liming, Yan, Chengfei, Li, Jilong, Ma, Zhiwei, Cheng, Jianlin, Zou, Xiaoqin, Shen, Yang, Peterson, Lenna X., Kim, Hyung-Rae, Roy, Amit, Han, Xusi, Esquivel-Rodriguez, Juan, Kihara, Daisuke, Yu, Xiaofeng, Bruce, Neil J., Fuller, Jonathan C., Wade, Rebecca C., Anishchenko, Ivan, Kundrotas, Petras J., Vakser, Ilya A., Imai, Kenichiro, Yamada, Kazunori, Oda, Toshiyuki, Nakamura, Tsukasa, Tomii, Kentaro, Pallara, Chiara, Romero-Durana, Miguel, Jiménez-García, Brian, Moal, Iain H., Férnandez-Recio, Juan, Joung, Jong Young, Kim, Jong Yun, Joo, Keehyoung, Lee, Jooyoung, Kozakov, Dima, Vajda, Sandor, Mottarella, Scott, Hall, David R., Beglov, Dmitri, Mamonov, Artem, Xia, Bing, Bohnuud, Tanggis, Del Carpio, Carlos A., Ichiishi, Eichiro, Marze, Nicholas, Kuroda, Daisuke, Gray, Jeffrey J., Chermak, Edrisse, Cavallo, Luigi, Oliva, Romina, Tovchigrechko, Andrey, Wodak, Shoshana J.
Published in Proteins, structure, function, and bioinformatics (01.09.2016)
Published in Proteins, structure, function, and bioinformatics (01.09.2016)
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Author Correction: Targeting DCAF5 suppresses SMARCB1-mutant cancer by stabilizing SWI/SNF
Radko-Juettner, Sandi, Yue, Hong, Myers, Jacquelyn A, Carter, Raymond D, Robertson, Alexis N, Mittal, Priya, Zhu, Zhexin, Hansen, Baranda S, Donovan, Katherine A, Hunkeler, Moritz, Rosikiewicz, Wojciech, Wu, Zhiping, McReynolds, Meghan G, Roy Burman, Shourya S, Schmoker, Anna M, Mageed, Nada, Brown, Scott A, Mobley, Robert J, Partridge, Janet F, Stewart, Elizabeth A, Pruett-Miller, Shondra M, Nabet, Behnam, Peng, Junmin, Gray, Nathanael S, Fischer, Eric S, Roberts, Charles W M
Published in Nature (London) (01.05.2024)
Published in Nature (London) (01.05.2024)
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Ensuring scientific reproducibility in bio-macromolecular modeling via extensive, automated benchmarks
Koehler Leman, Julia, Lyskov, Sergey, Lewis, Steven M, Adolf-Bryfogle, Jared, Alford, Rebecca F, Barlow, Kyle, Ben-Aharon, Ziv, Farrell, Daniel, Fell, Jason, Hansen, William A, Harmalkar, Ameya, Jeliazkov, Jeliazko, Kuenze, Georg, Krys, Justyna D, Ljubetič, Ajasja, Loshbaugh, Amanda L, Maguire, Jack, Moretti, Rocco, Mulligan, Vikram Khipple, Nance, Morgan L, Nguyen, Phuong T, Ó Conchúir, Shane, Roy Burman, Shourya S, Samanta, Rituparna, Smith, Shannon T, Teets, Frank, Tiemann, Johanna K S, Watkins, Andrew, Woods, Hope, Yachnin, Brahm J, Bahl, Christopher D, Bailey-Kellogg, Chris, Baker, David, Das, Rhiju, DiMaio, Frank, Khare, Sagar D, Kortemme, Tanja, Labonte, Jason W, Lindorff-Larsen, Kresten, Meiler, Jens, Schief, William, Schueler-Furman, Ora, Siegel, Justin B, Stein, Amelie, Yarov-Yarovoy, Vladimir, Kuhlman, Brian, Leaver-Fay, Andrew, Gront, Dominik, Gray, Jeffrey J, Bonneau, Richard
Published in Nature communications (29.11.2021)
Published in Nature communications (29.11.2021)
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