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BV-BRC: a unified bacterial and viral bioinformatics resource with expanded functionality and AI integration BV-BRC：一个整合了细菌和病毒生物信息学资源的统一平台，具有扩展功能与人工智能集成 Shukla, Maulik; Wattam, Alice R.; Aleman, Antonio; Bhattacharya, Roshni; Bowers, Nicole; Brettin, Thomas; Capria, Anna; Chia, Nicholas; Cucinell, Clark; Davis, James j; Dempsey, Donald M.; Dickerman, Allan; Dietrich, Emily M.; Gokdemir, Ozan; Hendrickson, R. curtis; Kenyon, Ronald W.; Klahn, Brian; Kuscuoglu, Mehmet; Lefkowitz, Elliot J.; Ma, Heng; Machi, Dustin; Macken, Catherine; Mann, Carla m; Mao, Chunhong; Nguyen, Marcus; Olsen, Gary J.; Olson, Robert D.; Overbeek, Ross; Owens, Sarah M.; Parrello, Bruce; Poretsky, Rachel; Pusch, Gordon D.; Ramanathan, Arvind; Sheriff, Jamal tyrone; Singh, Indresh; Stewart, Lucy; Vanoeffelen, Margo; Vonstein, Veronika; Warren, Andrew S.; Wilke, Andreas; Zmasek, Christian m; Zuniga, Abril; Stevens, Rick L. 分享 收藏
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Data imbalance in drug response prediction: multi-objective optimization approach in deep learning setting 药物反应预测中的数据不平衡：深度学习设置中的多目标优化方法 Narykov, Oleksandr; Zhu, Yitan; Brettin, Thomas; Evrard, Yvonne A.; Partin, Alexander; Xia, Fangfang; Shukla, Maulik; Vasanthakumari, Priyanka; Doroshow, James H.; Stevens, Rick L. 分享 收藏
CACHE Challenge #1: Targeting the WDR Domain of LRRK2, A Parkinson's Disease Associated Protein Li, Fengling; Ackloo, Suzanne; Arrowsmith, Cheryl H.; Ban, Fuqiang; Barden, Christopher J.; Beck, Hartmut; Beranek, Jan; Berenger, Francois; Bolotokova, Albina; Bret, Guillaume; Breznik, Marko; Carosati, Emanuele; Chau, Irene; Chen, Yu; Cherkasov, Artem; Della Corte, Dennis; Denzinger, Katrin; Dong, Aiping; Draga, Sorin; Dunn, Ian; Edfeldt, Kristina; Edwards, Aled; Eguida, Merveille; Eisenhuth, Paul; Friedrich, Lukas; Fuerll, Alexander; Gardiner, Spencer S.; Gentile, Francesco; Ghiabi, Pegah; Gibson, Elisa; Glavatskikh, Marta; Gorgulla, Christoph; Guenther, Judith; Gunnarsson, Anders; Gusev, Filipp; Gutkin, Evgeny; Halabelian, Levon; Harding, Rachel J.; Hillisch, Alexander; Hoffer, Laurent; Hogner, Anders; Houliston, Scott; Irwin, John J.; Isayev, Olexandr; Ivanova, Aleksandra; Jacquemard, Celien; Jarrett, Austin J.; Jensen, Jan H.; Kireev, Dmitri; Kleber, Julian; Koby, S. Benjamin; Koes, David; Kumar, Ashutosh; Kurnikova, Maria G.; Kutlushina, Alina; Lessel, Uta; Liessmann, Fabian; Liu, Sijie; Lu, Wei; Meiler, Jens; Mettu, Akhila; Minibaeva, Guzel; Moretti, Rocco; Morris, Connor J.; Narangoda, Chamali; Noonan, Theresa; Obendorf, Leon; Pach, Szymon; Pandit, Amit; Perveen, Sumera; Poda, Gennady; Polishchuk, Pavel; Puls, Kristina; Puetter, Vera; Rognan, Didier; Roskams-Edris, Dylan; Schindler, Christina; Sindt, Francois; Spiwok, Vojtech; Steinmann, Casper; Stevens, Rick L.; Talagayev, Valerij; Tingey, Damon; Vu, Oanh; Walters, W. Patrick; Wang, Xiaowen; Wang, Zhenyu; Wolber, Gerhard; Wolf, Clemens Alexander; Wortmann, Lars; Zeng, Hong; Zepeda, Carlos A.; Zhang, Kam Y. J.; Zhang, Jixian; Zheng, Shuangjia; Schapira, Matthieu 分享 收藏
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Engineering of increased L-Threonine production in bacteria by combinatorial cloning and machine learning 通过组合克隆和机器学习在细菌中增加L-苏氨酸生产的工程 Hanke, Paul; Parrello, Bruce; Vasieva, Olga; Akins, Chase; Chlenski, Philippe; Babnigg, Gyorgy; Henry, Chris; Foflonker, Fatima; Brettin, Thomas; Antonopoulos, Dionysios; Stevens, Rick; Fonstein, Michael 分享 收藏
GenSLMs: Genome-scale language models reveal SARS-CoV-2 evolutionary dynamics Zvyagin, Maxim; Brace, Alexander; Hippe, Kyle; Deng, Yuntian; Zhang, Bin; Bohorquez, Cindy Orozco; Clyde, Austin; Kale, Bharat; Perez-Rivera, Danilo; Ma, Heng; Mann, Carla M.; Irvin, Michael; Ozgulbas, Defne G.; Vassilieva, Natalia; Pauloski, James Gregory; Ward, Logan; Hayot-Sasson, Valerie; Emani, Murali; Foreman, Sam; Xie, Zhen; Lin, Diangen; Shukla, Maulik; Nie, Weili; Romero, Josh; Dallago, Christian; Vahdat, Arash; Xiao, Chaowei; Gibbs, Thomas; Foster, Ian; Davis, James J.; Papka, Michael E.; Brettin, Thomas; Stevens, Rick; Anandkumar, Anima; Vishwanath, Venkatram; Ramanathan, Arvind 分享 收藏
Data augmentation and multimodal learning for predicting drug response in patient-derived xenografts from gene expressions and histology images Partin, Alexander; Brettin, Thomas; Zhu, Yitan; Dolezal, James M. M.; Kochanny, Sara; Pearson, Alexander T. T.; Shukla, Maulik; Evrard, Yvonne A. A.; Doroshow, James H. H.; Stevens, Rick L. L. 分享 收藏
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AI-accelerated protein-ligand docking for SARS-CoV-2 is 100-fold faster with no significant change in detection Clyde, Austin; Liu, Xuefeng; Brettin, Thomas; Yoo, Hyunseung; Partin, Alexander; Babuji, Yadu; Blaiszik, Ben; Mohd-Yusof, Jamaludin; Merzky, Andre; Turilli, Matteo; Jha, Shantenu; Ramanathan, Arvind; Stevens, Rick 分享 收藏
Towards a modular architecture for science factories Vescovi, Rafael; Ginsburg, Tobias; Hippe, Kyle; Ozgulbas, Doga; Stone, Casey; Stroka, Abraham; Butler, Rory; Blaiszik, Ben; Brettin, Tom; Chard, Kyle; Hereld, Mark; Ramanathan, Arvind; Stevens, Rick; Vriza, Aikaterini; Xu, Jie; Zhang, Qingteng; Foster, Ian 分享 收藏
Introducing the Bacterial and Viral Bioinformatics Resource Center (BV-BRC): a resource combining PATRIC, IRD and ViPR 介绍细菌和病毒生物信息学资源中心 (bv-brc): 结合PATRIC，IRD和ViPR的资源 Olson, Robert D.; Assaf, Rida; Brettin, Thomas; Conrad, Neal; Cucinell, Clark; Davis, James J.; Dempsey, Donald M.; Dickerman, Allan; Dietrich, Emily M.; Kenyon, Ronald W.; Kuscuoglu, Mehmet; Lefkowitz, Elliot J.; Lu, Jian; Machi, Dustin; Macken, Catherine; Mao, Chunhong; Niewiadomska, Anna; Nguyen, Marcus; Olsen, Gary J.; Overbeek, Jamie C.; Parrello, Bruce; Parrello, Victoria; Porter, Jacob S.; Pusch, Gordon D.; Shukla, Maulik; Singh, Indresh; Stewart, Lucy; Tan, Gene; Thomas, Chris; VanOeffelen, Margo; Vonstein, Veronika; Wallace, Zachary S.; Warren, Andrew S.; Wattam, Alice R.; Xia, Fangfang; Yoo, Hyunseung; Zhang, Yun; Zmasek, Christian M.; Scheuermann, Richard H.; Stevens, Rick L. 分享 收藏
Intrinsically stretchable neuromorphic devices for on-body processing of health data with artificial intelligence 本质上可拉伸的神经形态设备，用于通过人工智能对健康数据进行身体处理 Dai, Shilei; Dai, Yahao; Zhao, Zixuan; Xia, Fangfang; Li, Yang; Liu, Youdi; Cheng, Ping; Strzalka, Joseph; Li, Songsong; Li, Nan; Su, Qi; Wai, Shinya; Liu, Wei; Zhang, Cheng; Zhao, Ruoyu; Yang, J. Joshua; Stevens, Rick; Xu, Jie; Huang, Jia; Wang, Sihong 分享 收藏
Intelligent resolution: Integrating Cryo-EM with AI-driven multi-resolution simulations to observe the severe acute respiratory syndrome coronavirus-2 replication-transcription machinery in action Trifan, Anda; Gorgun, Defne; Salim, Michael; Li, Zongyi; Brace, Alexander; Zvyagin, Maxim; Ma, Heng; Clyde, Austin; Clark, David; Hardy, David J.; Burnley, Tom; Huang, Lei; McCalpin, John; Emani, Murali; Yoo, Hyenseung; Yin, Junqi; Tsaris, Aristeidis; Subbiah, Vishal; Raza, Tanveer; Liu, Jessica; Trebesch, Noah; Wells, Geoffrey; Mysore, Venkatesh; Gibbs, Thomas; Phillips, James; Chennubhotla, S. Chakra; Foster, Ian; Stevens, Rick; Anandkumar, Anima; Vishwanath, Venkatram; Stone, John E.; Tajkhorshid, Emad; Harris, Sarah A.; Ramanathan, Arvind 分享 收藏
High-Throughput Virtual Screening and Validation of a SARS-CoV-2 Main Protease Noncovalent Inhibitor 一种SARS-CoV-2主要蛋白酶非共价抑制剂的高通量虚拟筛选与验证 Clyde, Austin; Galanie, Stephanie; Kneller, Daniel W.; Ma, Heng; Babuji, Yadu; Blaiszik, Ben; Brace, Alexander; Brettin, Thomas; Chard, Kyle; Chard, Ryan; Coates, Leighton; Foster, Ian; Hauner, Darin; Kertesz, Vilmos; Kumar, Neeraj; Lee, Hyungro; Li, Zhuozhao; Merzky, Andre; Schmidt, Jurgen G.; Tan, Li; Titov, Mikhail; Trifan, Anda; Turilli, Matteo; Van Dam, Hubertus; Chennubhotla, Srinivas C.; Jha, Shantenu; Kovalevsky, Andrey; Ramanathan, Arvind; Head, Martha S.; Stevens, Rick 分享 收藏
Pandemic drugs at pandemic speed: infrastructure for accelerating COVID-19 drug discovery with hybrid machine learning- and physics-based simulations on high-performance computers Bhati, Agastya P.; Wan, Shunzhou; Alfe, Dario; Clyde, Austin R.; Bode, Mathis; Tan, Li; Titov, Mikhail; Merzky, Andre; Turilli, Matteo; Jha, Shantenu; Highfield, Roger R.; Rocchia, Walter; Scafuri, Nicola; Succi, Sauro; Kranzlmueller, Dieter; Mathias, Gerald; Wifling, David; Donon, Yann; Di Meglio, Alberto; Vallecorsa, Sofia; Ma, Heng; Trifan, Anda; Ramanathan, Arvind; Brettin, Tom; Partin, Alexander; Xia, Fangfang; Duan, Xiaotan; Stevens, Rick; Coveney, Peter V. 分享 收藏
A cross-study analysis of drug response prediction in cancer cell lines 癌细胞系药物反应预测的交叉研究分析 Xia, Fangfang; Allen, Jonathan; Balaprakash, Prasanna; Brettin, Thomas; Garcia-Cardona, Cristina; Clyde, Austin; Cohn, Judith; Doroshow, James; Duan, Xiaotian; Dubinkina, Veronika; Evrard, Yvonne; Fan, Ya Ju; Gans, Jason; He, Stewart; Lu, Pinyi; Maslov, Sergei; Partin, Alexander; Shukla, Maulik; Stahlberg, Eric; Wozniak, Justin M.; Yoo, Hyunseung; Zaki, George; Zhu, Yitan; Stevens, Rick 分享 收藏
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