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A community challenge for a pancancer drug mechanism of action inference from perturbational profile data

The Columbia Cancer Target Discovery and Development (CTD2) Center is developing PANACEA, a resource comprising dose-responses and RNA sequencing (RNA-seq) profiles of 25 cell lines perturbed with ∼400 clinical oncology drugs, to study a tumor-specific drug mechanism of action. Here, this resource s...

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Main Authors: Douglass, Eugene F. (Author) , Allaway, Robert J. (Author) , Szalai, Bence (Author) , Wang, Wenyu (Author) , Tian, Tingzhong (Author) , Fernández-Torras, Adrià (Author) , Realubit, Ron (Author) , Karan, Charles (Author) , Zheng, Shuyu (Author) , Pessia, Alberto (Author) , Tanoli, Ziaurrehman (Author) , Jafari, Mohieddin (Author) , Wan, Fangping (Author) , Li, Shuya (Author) , Xiong, Yuanpeng (Author) , Duran-Frigola, Miquel (Author) , Bertoni, Martino (Author) , Badia-i-Mompel, Pau (Author) , Mateo, Lídia (Author) , Guitart-Pla, Oriol (Author) , Chung, Verena (Author) , Tang, Jing (Author) , Zeng, Jianyang (Author) , Aloy, Patrick (Author) , Sáez Rodríguez, Julio (Author) , Guinney, Justin (Author) , Gerhard, Daniela S. (Author) , Califano, Andrea (Author)
Format: Article (Journal)
Language:English
Published: January 18, 2022
In: Cell reports. Medicine
Year: 2022, Volume: 3, Issue: 1, Pages: 1-13, e1-e7
ISSN:2666-3791
DOI:10.1016/j.xcrm.2021.100492
Online Access:Verlag, lizenzpflichtig, Volltext: https://doi.org/10.1016/j.xcrm.2021.100492
Verlag, lizenzpflichtig, Volltext: https://www.sciencedirect.com/science/article/pii/S2666379121003694
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Author Notes:Eugene F. Douglass, Robert J. Allaway, Bence Szalai, Wenyu Wang, Tingzhong Tian, Adrià Fernández-Torras, Ron Realubit, Charles Karan, Shuyu Zheng, Alberto Pessia, Ziaurrehman Tanoli, Mohieddin Jafari, Fangping Wan, Shuya Li, Yuanpeng Xiong, Miquel Duran-Frigola, Martino Bertoni, Pau Badia-i-Mompel, Lídia Mateo, Oriol Guitart-Pla, Verena Chung, Jing Tang, Jianyang Zeng, Patrick Aloy, Julio Saez-Rodriguez, Justin Guinney, Daniela S. Gerhard, and Andrea Califano
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Summary:The Columbia Cancer Target Discovery and Development (CTD2) Center is developing PANACEA, a resource comprising dose-responses and RNA sequencing (RNA-seq) profiles of 25 cell lines perturbed with ∼400 clinical oncology drugs, to study a tumor-specific drug mechanism of action. Here, this resource serves as the basis for a DREAM Challenge assessing the accuracy and sensitivity of computational algorithms for de novo drug polypharmacology predictions. Dose-response and perturbational profiles for 32 kinase inhibitors are provided to 21 teams who are blind to the identity of the compounds. The teams are asked to predict high-affinity binding targets of each compound among ∼1,300 targets cataloged in DrugBank. The best performing methods leverage gene expression profile similarity analysis as well as deep-learning methodologies trained on individual datasets. This study lays the foundation for future integrative analyses of pharmacogenomic data, reconciliation of polypharmacology effects in different tumor contexts, and insights into network-based assessments of drug mechanisms of action.
Item Description:Gesehen am 20.12.2022
Physical Description:Online Resource
ISSN:2666-3791
DOI:10.1016/j.xcrm.2021.100492

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