BID Preferentially Activates BAK while BIM Preferentially Activates BAX, Affecting Chemotherapy Response by Sarosiek, Kristopher A., Chi, Xiaoke, Bachman, John A., Sims, Joshua J., Montero, Joan, Patel, Luv, Flanagan, Annabelle, Andrews, David W., Sorger, Peter, Letai, Anthony

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Fundamental trade-offs between information flow in single cells and cellular populations by Suderman, Ryan, Bachman, John A., Smith, Adam, Sorger, Peter K., Deeds, Eric J.

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Automated assembly of molecular mechanisms at scale from text mining and curated databases by Bachman, John A, Gyori, Benjamin M, Sorger, Peter K

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GeneWalk identifies relevant gene functions for a biological context using network representation learning by Ietswaart, Robert, Gyori, Benjamin M, Bachman, John A, Sorger, Peter K, Churchman, L Stirling

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From word models to executable models of signaling networks using automated assembly by Gyori, Benjamin M, Bachman, John A, Subramanian, Kartik, Muhlich, Jeremy L, Galescu, Lucian, Sorger, Peter K

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Programming biological models in Python using PySB by Lopez, Carlos F, Muhlich, Jeremy L, Bachman, John A, Sorger, Peter K

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FamPlex: a resource for entity recognition and relationship resolution of human protein families and complexes in biomedical text mining by Bachman, John A, Gyori, Benjamin M, Sorger, Peter K

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shinyDepMap, a tool to identify targetable cancer genes and their functional connections from Cancer Dependency Map data by Shimada, Kenichi, Bachman, John A, Muhlich, Jeremy L, Mitchison, Timothy J

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Author-sourced capture of pathway knowledge in computable form using Biofactoid by Wong, Jeffrey V, Franz, Max, Siper, Metin Can, Fong, Dylan, Durupinar, Funda, Dallago, Christian, Luna, Augustin, Giorgi, John, Rodchenkov, Igor, Babur, Özgün, Bachman, John A, Gyori, Benjamin M, Demir, Emek, Bader, Gary D, Sander, Chris

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Optimizing ring assembly reveals the strength of weak interactions by Deeds, Eric J, Bachman, John A, Fontana, Walter

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INDRA-IPM: interactive pathway modeling using natural language with automated assembly by Todorov, Petar V, Gyori, Benjamin M, Bachman, John A, Sorger, Peter K

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Synthetic Lethal Interaction of SHOC2 Depletion with MEK Inhibition in RAS-Driven Cancers by Sulahian, Rita, Kwon, Jason J., Walsh, Katherine H., Pailler, Emma, Bosse, Timothy L., Thaker, Maneesha, Almanza, Diego, Dempster, Joshua M., Pan, Joshua, Piccioni, Federica, Dumont, Nancy, Gonzalez, Alfredo, Rennhack, Jonathan, Nabet, Behnam, Bachman, John A., Goodale, Amy, Lee, Yenarae, Bagul, Mukta, Liao, Rosy, Navarro, Adrija, Yuan, Tina L., Ng, Raymond W.S., Raghavan, Srivatsan, Gray, Nathanael S., Tsherniak, Aviad, Vazquez, Francisca, Root, David E., Firestone, Ari J., Settleman, Jeff, Hahn, William C., Aguirre, Andrew J.

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From knowledge to models: Automated modeling in systems and synthetic biology by Gyori, Benjamin M., Bachman, John A.

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Community Assessment of the Predictability of Cancer Protein and Phosphoprotein Levels from Genomics and Transcriptomics by Yang, Mi, Petralia, Francesca, Li, Zhi, Li, Hongyang, Ma, Weiping, Song, Xiaoyu, Kim, Sunkyu, Lee, Heewon, Yu, Han, Lee, Bora, Bae, Seohui, Heo, Eunji, Kaczmarczyk, Jan, Stępniak, Piotr, Warchoł, Michał, Yu, Thomas, Calinawan, Anna P., Boutros, Paul C., Payne, Samuel H., Reva, Boris, Aderinwale, Tunde, Afyounian, Ebrahim, Agrawal, Piyush, Ali, Mehreen, Amadoz, Alicia, Azuaje, Francisco, Bachman, John, Bae, Seohui, Bhalla, Sherry, Carbonell-Caballero, José, Chakraborty, Priyanka, Chaudhary, Kumardeep, Choi, Yonghwa, Choi, Yoonjung, Çubuk, Cankut, Dhanda, Sandeep Kumar, Dopazo, Joaquín, Elo, Laura L., Fóthi, Ábel, Gevaert, Olivier, Granberg, Kirsi, Greiner, Russell, Heo, Eunji, Hidalgo, Marta R., Jayaswal, Vivek, Jeon, Hwisang, Jeon, Minji, Kalmady, Sunil V., Kambara, Yasuhiro, Kang, Jaewoo, Kang, Keunsoo, Kaoma, Tony, Kaur, Harpreet, Kazan, Hilal, Kesar, Devishi, Kesseli, Juha, Kim, Daehan, Kim, Keonwoo, Kim, Sang-Yoon, Kim, Sunkyu, Kumar, Sajal, Lee, Bora, Lee, Heewon, Liu, Yunpeng, Luethy, Roland, Mahajan, Swapnil, Mahmoudian, Mehrad, Muller, Arnaud, Nazarov, Petr V., Nguyen, Hien, Nykter, Matti, Okuda, Shujiro, Park, Sungsoo, Pal Singh Raghava, Gajendra, Rajapakse, Jagath C., Rantapero, Tommi, Ryu, Hobin, Salavert, Francisco, Saraei, Sohrab, Sharma, Ruby, Siitonen, Ari, Sokolov, Artem, Subramanian, Kartik, Suni, Veronika, Suomi, Tomi, Tranchevent, Léon-Charles, Usmani, Salman Sadullah, Välikangas, Tommi, Vega, Roberto, Zhong, Hua, Boja, Emily, Rodriguez, Henry, Stolovitzky, Gustavo, Guan, Yuanfang, Kang, Jaewoo, Wang, Pei, Fenyö, David, Saez-Rodriguez, Julio

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An address on education

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A Programmatic Modeling Approach to Explore Alternative Hypothesis of Mitochondrial Regulation in Extrinsic Apoptosis Signaling by Lopez, Carlos F., Muhlich, Jeremy L., Bachman, John A., Sorger, Peter K.

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Comparison of Two Group Treatments for Bulimia by Kirkley, Betty G, Schneider, John A, Agras, W. Stewart, Bachman, John A

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HSR Vehicle Performance Characteristics by Bachman, John A

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Capturing scientific knowledge in computable form by Wong, Jeffrey V, Franz, Max, Metin Can Siper, Fong, Dylan, Durupinar, Funda, Dallago, Christian, Luna, Augustin, Giorgi, John, Rodchenkov, Igor, Babur, Özgün, Bachman, John A, Gyori, Benjamin M, Demir, Emek, Bader, Gary D, Sander, Chris

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A versatile and interoperable computational framework for the analysis and modeling of COVID-19 disease mechanisms by Niarakis, Anna, Ostaszewski, Marek, Mazein, Alexander, Kuperstein, Inna, Gillespie, Marc E, Kutmon, Martina, Funahashi, Akira, Acencio, Marcio Luis, Hemedan, Ahmed, Aichem, Michael, Klein, Karsten, Czauderna, Tobias, Burtscher, Felicia, Yamada, Takahiro G, Hiki, Yusuke, Hiroi, Noriko F, Hu, Finterly, Pham, Nhung, Ehrhart, Friederike, Willighagen, Egon L, Valdeolivas, Alberto, Dugourd, Aurelien, Messina, Francesco, Esteban-Medina, Marina, Pena-Chilet, Maria, Kinza Rian, Soliman, Sylvain, Sara Sadat Aghamiri, Bhanwar Lal Puniya, Naldi, Aurelien, Helikar, Tomas, Singh, Vidisha, Marco Farinas Fernandez, Bermudez, Viviam, Tsirvouli, Eirini, Montagud, Arnau, Noel, Vincent, Ponce De Leon, Miguel, Maier, Dieter, Bauch, Angela, Gyori, Benjamin M, Bachman, John A, Luna, Agustin, Pinero, Janet, Furlong, Laura, Balaur, Irina, Rougny, Adrien, Jarosz, Yohan, Overall, Rupert W, Phair, Robert, Perfetto, Livia, Matthews, Lisa, Devasahayam Arokia Balaya Rex, Orlic-Milacic, Marija, Luis Cristobal Monraz Gomez, Bertrand De Meulder, Ravel, Jean Marie, Jassal, Bijay, Satagopam, Venkata P, Wu, Guanming, Golebiewski, Martin, Gawron, Piotr, Calzone, Laurence, Beckmann, Jacques, Evelo, Chris, D'eustachio, Peter, Schreiber, Falk, Saez-Rodriguez, Julio, Dopazo, Joaquin, Kuiper, Martin, Valencia, Alfonso, Wolkenhauer, Olaf, Kitano, Hiroaki, Barillot, Emmanuel, Auffray, Charles, Balling, Rudi, Schneider, Reinhard, The Covid-19 Disease Map Community

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