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Community assessment to advance computational prediction of cancer drug combinations in a pharmacogenomic screen [PDF]
, 2019 The effectiveness of most cancer targeted therapies is short-lived. Tumors often develop resistance that might be overcome with drug combinations. However, the number of possible combinations is vast, necessitating data-driven approaches to find optimal ...Abante, J, Abecassis, BS, Aben, N, Aghamirzaie, D, Ahsen, ME, Aittokallio, T, Akhtari, FS, Al-lazikani, B, Alam, T, Allam, A, Allen, C, Altarawy, D, Alves, V, Amadoz, A, Anchang, B, Angel Pujana, M, Antolin, AA, Ash, JR, Ba-alawi, W, Bagheri, M, Bajic, V, Ball, G, Ballester, PJ, Baptista, D, Bare, C, Bateson, M, Bender, A, Bertrand, D, Boroevich, KA, Bosdriesz, E, Bougouffa, S, Bounova, G, Brouwer, T, Bryant, B, Bulusu, KC, Calaza, M, Calderone, A, Calza, S, Capuzzi, S, Carbonell-Caballero, J, Carlin, D, Carter, H, Castagnoli, L, Celebi, R, Cesareni, G, Chang, H, Chen, G, Chen, H, Chen, H, Cheng, L, Chernomoretz, A, Chicco, D, Cho, K-H, Cho, S, Choi, D, Choi, J, Choi, K, Choi, M, Coker, E, Combinatio, A-SD, Cortes-Ciriano, I, Cserzo, M, Cubuk, C, Curtis, C, Dang, CC, de Almeida, MP, De Cock, M, de Esch, I, de Graaf, C, De Maeyer, D, De Niz, C, de Ruiter, JR, De Troyer, E, Di Veroli, GY, Dijkstra, T, Dopazo, J, Draghici, S, Drosou, A, Dry, JR, Dumontier, M, Ehrhart, F, Eid, F-E, ElHefnawi, M, Elmarakeby, H, Engin, HB, Evelo, C, Falcao, AO, Farag, S, Fawell, S, Fernandez-Lozano, C, Fisch, K, Flobak, A, Fornari, C, Foroushani, ABK, Fotso, DC, Fourches, D, Friend, S, Frigessi, A, Gao, F, Gao, X, Garnett, MJ, Gerold, JM, Gestraud, P, Ghazoui, Z, Ghosh, S, Gillberg, J, Godoy-Lorite, A, Godynyuk, L, Godzik, A, Goldenberg, A, Gomez-Cabrero, D, Gonen, M, Gray, H, Grechkin, M, Guan, Y, Guimera, R, Guinney, J, Guney, E, Haibe-Kains, B, Han, Y, Hase, T, He, D, He, L, Heath, LS, Hellton, KH, Helmer-Citterich, M, Hidalgo, MR, Hidru, D, Hill, SM, Hochreiter, S, Hong, S, Hovig, E, Hsueh, Y-C, Hu, Z, Huang, JK, Huang, RS, Hunyady, L, Hwang, J, Hwang, TH, Hwang, W, Hwang, Y, Isayev, O, Jack, J, Jahandideh, S, Jang, IS, Jeon, M, Ji, J, Jo, Y, Kamola, PJ, Kanev, GK, Kang, J, Karacosta, L, Karimi, M, Kaski, S, Kazanov, M, Khamis, AM, Khan, SA, Kiani, NA, Kim, A, Kim, J, Kim, J, Kim, K, Kim, K, Kim, S, Kim, Y, Kim, Y, Kirk, PDW, Kitano, H, Klambauer, G, Knowles, D, Ko, M, Kohn-Luque, A, Kooistra, AJ, Kuenemann, MA, Kuiper, M, Kurz, C, Kwon, M, Laegreid, A, Lederer, S, Lee, H, Lee, J, Lee, YW, Leppaho, E, Lewis, R, Li, J, Li, L, Liley, J, Lim, WK, Lin, C, Liu, Y, Lopez, Y, Low, J, Lysenko, A, Machado, D, Madhukar, N, Malpartida, AB, Mamitsuka, H, Marabita, F, Marchal, K, Marttinen, P, Mason, D, Mason, MJ, Mazaheri, A, Mehmood, A, Mehreen, A, Menden, MP, Michaut, M, Miller, RA, Mitsopoulos, C, Modos, D, Moo, K, Motsinger-Reif, A, Movva, R, Muraru, S, Muratov, E, Mushthofa, M, Nagarajan, N, Nakken, S, Nath, A, Neto, EC, Neuvial, P, Newton, R, Nguyen, T, Ning, Z, Norman, T, Oliva, B, Olsen, C, Palmeri, A, Panesar, B, Papadopoulos, S, Park, J, Park, S, Park, S, Pawitan, Y, Peluso, D, Pendyala, S, Peng, J, Perfetto, L, Pirro, S, Plevritis, S, Politi, R, Poon, H, Porta, E, Prellner, I, Preuer, K, Ramnarine, R, Reid, JE, Reyal, F, Richardson, S, Ricketts, C, Rieswijk, L, Rocha, M, Rodriguez-Gonzalvez, C, Roell, K, Romeo Aznar, V, Rotroff, D, Rukawa, P, Sadacca, B, Saez-Rodriguez, J, Safikhani, Z, Safitri, F, Sales-Pardo, M, Sauer, S, Schlichting, M, Seoane, JA, Serra, J, Shang, M-M, Sharma, A, Sharma, H, Shen, Y, Shiga, M, Shin, M, Shkedy, Z, Shopsowitz, K, Sinai, S, Skola, D, Smirnov, P, Soerensen, IF, Soerensen, P, Song, J-H, Song, SO, Soufan, O, Spitzmueller, A, Steipe, B, Stolovitzky, G, Suphavilai, C, Szalai, B, Tamayo, SP, Tamborero, D, Tang, EKY, Tang, J, Tanoli, Z-U-R, Tarres-Deulofeu, M, Tegner, J, Thommesen, L, Tonekaboni, SAM, Tran, H, Truong, A, Tsunoda, T, Turu, G, Tzeng, G-Y, Van Daele, D, van Engelen, B, van Laarhoven, T, Van Moerbeke, M, van Westen, GJP, Verbeke, L, Videla, S, Vis, D, Vogel, R, Voronkov, A, Votis, K, Walk, OBD, Wang, A, Wang, D, Wang, H-QH, Wang, P-W, Wang, S, Wang, W, Wang, X, Wang, X, Wennerberg, K, Wernisch, L, Wessels, L, Westerman, BA, White, SR, Wijayawardena, B, Willighagen, E, Wolfinger, R, Wurdinger, T, Xie, L, Xie, S, Xu, H, Yadav, B, Yau, C, Yeerna, H, Yin, JW, Yu, M, Yu, M, Yu, T, Yun, SJ, Zakharov, A, Zamichos, A, Zanin, M, Zaslavskiy, M, Zeng, L, Zenil, H, Zhang, F, Zhang, P, Zhang, W, Zhao, H, Zhao, L, Zheng, W, Zoufir, A, Zucknick, M +354 morecore +20 more sourcesDRUG-NEM: Optimizing drug combinations using single-cell perturbation response to account for intratumoral heterogeneity. [PDF]
, 2018 An individual malignant tumor is composed of a heterogeneous collection of single cells with distinct molecular and phenotypic features, a phenomenon termed intratumoral heterogeneity.Anchang, Benedict, Bendall, Sean C, Davis, Kara L, Fienberg, Harris G, Karacosta, Loukia G, Nolan, Garry P, Plevritis, Sylvia K, Tibshirani, Robert, Williamson, Brian D +8 morecore +1 more sourceCustomizing the therapeutic response of signaling networks to promote antitumor responses by drug combinations [PDF]
, 2014 Drug resistance, de novo and acquired, pervades cellular signaling networks (SNs) from one signaling motif to another as a result of cancer progression and/or drug intervention.Bown, James L., Goltsov, Alexey, Goltsov, Gregory, Harrison, David J., Langdon, Simon P. +4 morecore +3 more sourcesActivity of oxantel pamoate monotherapy and combination chemotherapy against Trichuris muris and hookworms : revival of an old drug [PDF]
, 2013 BACKGROUND: It is widely recognized that only a handful of drugs are available against soil-transmitted helminthiasis, all of which are characterized by a low efficacy against Trichuris trichiura, when administered as single doses.Adelfio, R., Keiser, J., Silbereisen, A., Speich, B., Tritten, L., Vargas, M. +5 morecore +2 more sourcesSynergistic drug combinations from electronic health records and gene expression. [PDF]
, 2016 ObjectiveUsing electronic health records (EHRs) and biomolecular data, we sought to discover drug pairs with synergistic repurposing potential. EHRs provide real-world treatment and outcome patterns, while complementary biomolecular data, including ...Chen, William, Daugherty, Aaron C, Desai, Manisha, Farrington, Carl, Gomez, Scarlett L, Hastie, Trevor, Kenkare, Pragati, Kurian, Allison W, Lim, Michael, Low, Yen S, Mathur, Maya, Radin, Andrew A, Schroeder, Elizabeth A, Seto, Tina, Shah, Nigam H, Sirota, Marina, Sledge, George W, Thompson, Caroline A, Weber, Susan, Yu, Peter P +19 morecore +2 more sourcesNetwork-based prediction of drug combinations
Nature Communications, 2019 Combination therapy holds great promise, but discovery remains challenging. Here, the authors propose a method to identify efficacious drug combinations for specific diseases, and find that successful combinations tend to target separate neighbourhoods ...Feixiong Cheng, István A. Kovács, Albert-László Barabási +2 moredoaj +1 more sourceKinome rewiring reveals AURKA limits PI3K-pathway inhibitor efficacy in breast cancer. [PDF]
, 2018 Dysregulation of the PI3K-AKT-mTOR signaling network is a prominent feature of breast cancers. However, clinical responses to drugs targeting this pathway have been modest, possibly because of dynamic changes in cellular signaling that drive resistance ...A Bosch, A Katsha, A Subramanian, AA Dar, Andrei Goga, AS Nikonova, AV Statsuk, AY Choo, B MacLean, C Leroy, Cancer Genome Atlas Network., D Bankston, DA Fruman, F Janku, F Zheng, GR Anderson, H Daub, H Yang, Hayley J. Donnella, J Baselga, J Foucquier, J Hollander den, J Lehár, JA Diehl, James E. Korkola, James T. Webber, JE Ferrell Jr., JF Blake, John D. Gordan, JS Duncan, KE O’Reilly, Kevan M. Shokat, Khyati N. Shah, KJ Brewer Savannah, L Boussemart, L Lu, L Vadlakonda, LL Liu, M Bantscheff, M Barvian, M Choi, M Elkabets, M Laplante, M Piccart, M Tanaka, MJ West, MK Muellner, ML Sos, MM Martins, N Dey, N Ilic, N Volkmann, Nora Bayani, Olga Momcilovic, P Liu, PM Barr, PP Roux, QB She, R Sears, RB Corcoran, Rebecca S. Levin, RM Neve, Roman Camarda, SJ Klempner, SMA Lens, Sourav Bandyopadhyay, SR Vora, TJ Stuhlmiller, TK Nomanbhoy, Y Zwang +69 morecore +1 more source