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Nucleotide Transformer: building and evaluating robust foundation models for human genomics Dalla-Torre, Hugo; Gonzalez, Liam; Mendoza-Revilla, Javier; Carranza, Nicolas Lopez; Grzywaczewski, Adam Henryk; Oteri, Francesco; Dallago, Christian; Trop, Evan; de Almeida, Bernardo P.; Sirelkhatim, Hassan; Richard, Guillaume; Skwark, Marcin; Beguir, Karim; Lopez, Marie; Pierrot, Thomas Share Save
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 Share Save
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A roadmap for the functional annotation of protein families: a community perspective de Crecy-Lagard, Valerie; de Hegedus, Rocio Amorin; Arighi, Cecilia; Babor, Jill; Bateman, Alex; Blaby, Ian; Blaby-Haas, Crysten; Bridge, Alan J.; Burley, Stephen K.; Cleveland, Stacey; Colwell, Lucy J.; Conesa, Ana; Dallago, Christian; Danchin, Antoine; de Waard, Anita; Deutschbauer, Adam; Dias, Raquel; Ding, Yousong; Fang, Gang; Friedberg, Iddo; Gerlt, John; Goldford, Joshua; Gorelik, Mark; Gyori, Benjamin M.; Henry, Christopher; Hutinet, Geoffrey; Jaroch, Marshall; Karp, Peter D.; Kondratova, Liudmyla; Lu, Zhiyong; Marchler-Bauer, Aron; Martin, Maria-Jesus; McWhite, Claire; Moghe, Gaurav D.; Monaghan, Paul; Morgat, Anne; Mungall, Christopher J.; Natale, Darren A.; Nelson, William C.; O'Donoghue, Sean; Orengo, Christine; O'Toole, Katherine H.; Radivojac, Predrag; Reed, Colbie; Roberts, Richard J.; Rodionov, Dmitri; Rodionova, Irina A.; Rudolf, Jeffrey D.; Saleh, Lana; Sheynkman, Gloria; Thibaud-Nissen, Francoise; Thomas, Paul D.; Uetz, Peter; Vallenet, David; Carter, Erica Watson; Weigele, Peter R.; Wood, Valerie; Wood-Charlson, Elisha M.; Xu, Jin Share Save
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Science Forum: Author-sourced capture of pathway knowledge in computable form using Biofactoid Wong, Jeffrey, V; Franz, Max; Siper, Metin Can; Fong, Dylan; Durupinar, Funda; Dallago, Christian; Luna, Augustin; Giorgi, John; Rodchenkov, Igor; Babur, Ozgun; Bachman, John A.; Gyori, Benjamin M.; Demir, Emek; Bader, Gary D.; Sander, Chris Share Save
ProteomicsDB: toward a FAIR open-source resource for life-science research Lautenbacher, Ludwig; Samaras, Patroklos; Muller, Julian; Grafberger, Andreas; Shraideh, Marwin; Rank, Johannes; Fuchs, Simon T.; Schmidt, Tobias K.; The, Matthew; Dallago, Christian; Wittges, Holger; Rost, Burkhard; Krcmar, Helmut; Kuster, Bernhard; Wilhelm, Mathias Share Save
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SARS-CoV-2 structural coverage map reveals viral protein assembly, mimicry, and hijacking mechanisms O'Donoghue, Sean, I; Schafferhans, Andrea; Sikta, Neblina; Stolte, Christian; Kaur, Sandeep; Ho, Bosco K.; Anderson, Stuart; Procter, James B.; Dallago, Christian; Bordin, Nicola; Adcock, Matt; Rost, Burkhard Share Save
PredictProtein - Predicting Protein Structure and Function for 29 Years Bernhofer, Michael; Dallago, Christian; Karl, Tim; Satagopam, Venkata; Heinzinger, Michael; Littmann, Maria; Olenyi, Tobias; Qiu, Jiajun; Schuetze, Konstantin; Yachdav, Guy; Ashkenazy, Haim; Ben-Tal, Nir; Bromberg, Yana; Goldberg, Tatyana; Kajan, Laszlo; O'Donoghue, Sean; Sander, Chris; Schafferhans, Andrea; Schlessinger, Avner; Vriend, Gerrit; Mirdita, Milot; Gawron, Piotr; Gu, Wei; Jarosz, Yohan; Trefois, Christophe; Steinegger, Martin; Schneider, Reinhard; Rost, Burkhard Share Save
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Pathway Commons 2019 Update: integration, analysis and exploration of pathway data Rodchenkov, Igor; Babur, Ozgun; Luna, Augustin; Aksoy, Bulent Arman; Wong, Jeffrey, V; Fong, Dylan; Franz, Max; Siper, Metin Can; Cheung, Manfred; Wrana, Michael; Mistry, Harsh; Mosier, Logan; Dlin, Jonah; Wen, Qizhi; O'Callaghan, Caitlin; Li, Wanxin; Elder, Geoffrey; Smith, Peter T.; Dallago, Christian; Cerami, Ethan; Gross, Benjamin; Dogrusoz, Ugur; Demir, Emek; Bader, Gary D.; Sander, Chris Share Save
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