BACKGROUND: The cBioPortal is a prevalent open-source translational research platform, allowing private instances and extensions. OBJECTIVE: Our aim was to build up an own instance of cBioPortal, identify missing functionality by interviewing researchers, and implementing these extensions. METHODS: We examined the code base of the cBioPortal and conducted a requirements analysis with researchers. Then an own extension was implemented and a usability evaluation was performed. RESULTS: We developed a new tab in the results view of cBioPortal adding the option to analyze the correlation of gene expression and mutation patterns. CONCLUSION: While extending the cBioPortal is possible, there are still some challenges to overcome. A plug-in concept and a more detailed documentation would greatly facilitate the development of own extensions.
BACKGROUND: The cBioPortal is a prevalent open-source translational research platform, allowing private instances and extensions. OBJECTIVE: Our aim was to build up an own instance of cBioPortal, identify missing functionality by interviewing researchers, and implementing these extensions. METHODS: We examined the code base of the cBioPortal and conducted a requirements analysis with researchers. Then an own extension was implemented and a usability evaluation was performed. RESULTS: We developed a new tab in the results view of cBioPortal adding the option to analyze the correlation of gene expression and mutation patterns. CONCLUSION: While extending the cBioPortal is possible, there are still some challenges to overcome. A plug-in concept and a more detailed documentation would greatly facilitate the development of own extensions.
Entities:
Keywords:
MI-I; MIRACUM; cBioPortal; genomics; translational research
Authors: Chen Hao Jiang; Xin Yuan; Jiang Fen Li; Yu Fang Xie; An Zhi Zhang; Xue Li Wang; Lan Yang; Chun Xia Liu; Wei Hua Liang; Li Juan Pang; Hong Zou; Xiao Bin Cui; Xi Hua Shen; Yan Qi; Jin Fang Jiang; Wen Yi Gu; Feng Li; Jian Ming Hu Journal: J Transl Med Date: 2020-01-30 Impact factor: 5.531
Authors: Xin Yuan; Ya Li; An Zhi Zhang; Chen Hao Jiang; Fan Ping Li; Yu Fang Xie; Jiang Fen Li; Wei Hua Liang; Hai Jun Zhang; Chun Xia Liu; Li Juan Pang; Xi Hua Shen; Feng Li; Jian Ming Hu Journal: Aging (Albany NY) Date: 2020-12-15 Impact factor: 5.682
Authors: Chassidy N Barnes; Blake P Johnson; Stefanie W Leacock; Ruben M Ceballos; Lori L Hensley; Nathan S Reyna Journal: J Microbiol Biol Educ Date: 2021-03-31