Systematic assessment of multi-gene predictors of pan-cancer cell line sensitivity to drugs exploiting gene expression data [version 2; referees: 2 approved]

Autor: Linh Nguyen, Cuong C Dang, Pedro J. Ballester

Publikováno v: F1000Research, Vol 5 (2017)

Background: Selected gene mutations are routinely used to guide the selection of cancer drugs for a given patient tumour. Large pharmacogenomic data sets, such as those by Genomics of Drug Sensitivity in Cancer (GDSC) consortium, were introduced to d

Externí odkaz: https://doaj.org/article/29cf0fcaa6c14b219f7e4e5f43eb1d8a

Prediction of overall survival for patients with metastatic castration-resistant prostate cancer: development of a prognostic model through a crowdsourced challenge with open clinical trial data

Autor: Justin Guinney, Tao Wang, Teemu D Laajala, Kimberly Kanigel Winner, J Christopher Bare, Elias Chaibub Neto, Suleiman A Khan, Gopal Peddinti, Antti Airola, Tapio Pahikkala, Tuomas Mirtti, Thomas Yu, Brian M Bot, Liji Shen, Kald Abdallah, Thea Norman, Stephen Friend, Gustavo Stolovitzky, Howard Soule, Christopher J Sweeney, Charles J Ryan, Howard I Scher, Oliver Sartor, Yang Xie, Tero Aittokallio, Fang Liz Zhou, James C Costello, Catalina Anghe, Helia Azima, Robert Baertsch, Pedro J Ballester, Chris Bare, Vinayak Bhandari, Cuong C Dang, Maria Bekker-Nielsen Dunbar, Ann-Sophie Buchardt, Ljubomir Buturovic, Da Cao, Prabhakar Chalise, Junwoo Cho, Tzu-Ming Chu, R Yates Coley, Sailesh Conjeti, Sara Correia, Ziwei Dai, Junqiang Dai, Philip Dargatz, Sam Delavarkhan, Detian Deng, Ankur Dhanik, Yu Du, Aparna Elangovan, Shellie Ellis, Laura L Elo, Shadrielle M Espiritu, Fan Fan, Ashkan B Farshi, Ana Freitas, Brooke Fridley, Christiane Fuchs, Eyal Gofer, Gopalacharyulu Peddinti, Stefan Graw, Russ Greiner, Yuanfang Guan, Jing Guo, Pankaj Gupta, Anna I Guyer, Jiawei Han, Niels R Hansen, Billy HW Chang, Outi Hirvonen, Barbara Huang, Chao Huang, Jinseub Hwang, Joseph G Ibrahim, Vivek Jayaswa, Jouhyun Jeon, Zhicheng Ji, Deekshith Juvvadi, Sirkku Jyrkkiö, Kimberly Kanigel-Winner, Amin Katouzian, Marat D Kazanov, Shahin Khayyer, Dalho Kim, Agnieszka K Golinska, Devin Koestler, Fernanda Kokowicz, Ivan Kondofersky, Norbert Krautenbacher, Damjan Krstajic, Luke Kumar, Christoph Kurz, Matthew Kyan, Michael Laimighofer, Eunjee Lee, Wojciech Lesinski, Miaozhu Li, Ye Li, Qiuyu Lian, Xiaotao Liang, Minseong Lim, Henry Lin, Xihui Lin, Jing Lu, Mehrad Mahmoudian, Roozbeh Manshaei, Richard Meier, Dejan Miljkovic, Krzysztof Mnich, Nassir Navab, Elias C Neto, Yulia Newton, Subhabrata Pal, Byeongju Park, Jaykumar Patel, Swetabh Pathak, Alejandrina Pattin, Donna P Ankerst, Jian Peng, Anne H Petersen, Robin Philip, Stephen R Piccolo, Sebastian Pölsterl, Aneta Polewko-Klim, Karthik Rao, Xiang Ren, Miguel Rocha, Witold R. Rudnicki, Hyunnam Ryu, Hagen Scherb, Raghav Sehgal, Fatemeh Seyednasrollah, Jingbo Shang, Bin Shao, Howard Sher, Motoki Shiga, Artem Sokolov, Julia F Söllner, Lei Song, Josh Stuart, Ren Sun, Nazanin Tahmasebi, Kar-Tong Tan, Lisbeth Tomaziu, Joseph Usset, Yeeleng S Vang, Roberto Vega, Vitor Vieira, David Wang, Difei Wang, Junmei Wang, Lichao Wang, Sheng Wang, Yue Wang, Russ Wolfinger, Chris Wong, Zhenke Wu, Jinfeng Xiao, Xiaohui Xie, Doris Xin, Hojin Yang, Nancy Yu, Xiang Yu, Sulmaz Zahedi, Massimiliano Zanin, Chihao Zhang, Jingwen Zhang, Shihua Zhang, Yanchun Zhang, Hongtu Zhu, Shanfeng Zhu, Yuxin Zhu

Publikováno v: Repositório Científico de Acesso Aberto de Portugal
Repositório Científico de Acesso Aberto de Portugal (RCAAP)
instacron:RCAAP
Lancet Oncol. 18, 132-142 (2017)
Guinney, J, Wang, T, Laajala, T D, Winner, K K, Bare, J C, Neto, E C, Khan, S A, Peddinti, G, Airola, A, Pahikkala, T, Mirtti, T, Yu, T, Bot, B M, Shen, L, Abdallah, K, Norman, T, Friend, S, Stolovitzky, G, Soule, H, Sweeney, C J, Ryan, C J, Scher, H I, Sartor, O, Xie, Y, Aittokallio, T, Zhou, F L, Costello, J C & Prostate Cancer Challenge DREAM Community 2017, ' Prediction of overall survival for patients with metastatic castration-resistant prostate cancer : development of a prognostic model through a crowdsourced challenge with open clinical trial data ', The Lancet: Oncology, vol. 18, no. 1, pp. 132-142 . https://doi.org/10.1016/S1470-2045(16)30560-5

Background: Improvements to prognostic models in metastatic castration-resistant prostate cancer have the potential to augment clinical trial design and guide treatment strategies. In partnership with Project Data Sphere, a not-for-profit initiative

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::6e29c71ca03dc8018abacbcb6b41b185
https://doi.org/10.1016/s1470-2045(16)30560-5

How reliable are ligand-centric methods for Target Fishing?

Autor: Antonio ePeon, Cuong C Dang, Pedro J Ballester

Publikováno v: Frontiers in Chemistry, Vol 4 (2016)

Computational methods for Target Fishing (TF), also known as Target Prediction or Polypharmacology Prediction, can be used to discover new targets for small-molecule drugs. This may result in repositioning the drug in a new indication or improving ou

Externí odkaz: https://doaj.org/article/1b3222e352ed40e782a0fd4bae86d386