학술논문
Progress toward a universal biomedical data translator
Document Type
Report
Author
Fecho, Karamarie; Thessen, Anne E.; Baranzini, Sergio E.; Bizon, Chris; Hadlock, Jennifer J.; Huang, Sui; Roper, Ryan T.; Southall, Noel; Ta, Casey; Watkins, Paul B.; Williams, Mark D.; Xu, Hao; Byrd, William; Dančík, Vlado; Duby, Marc P.; Dumontier, Michel; Glusman, Gustavo; Harris, Nomi L.; Hinderer, Eugene W.; Hyde, Greg; Johs, Adam; Su, Andrew I.; Qin, Guangrong; Zhu, Qian; Acevedo, Liliana; Ahalt, Stanley C.; Alden, John; Alkanaq, Ahmed; Amin, Nada; Avila, Ricardo; Bada, Michael; Balhoff, Jim; Baumgartner, Andrew; Baumgartner, William; Belhu, Basazin; Brandes, Mac Kenzie; Brandon, Namdi; Brush, Matthew; Bruskiewich, Richard; Burtt, Noel; Callaghan, Jackson; Cano, Marco Alvarado; Carrell, Steven; Caufield, J. Harry; Celebi, Remzi; Champion, James; Chen, Zhehuan; Chen, Mei‐Jan; Chung, Lawrence; Clemons, Paul A.; Cohen, Kevin; Conlin, Tom; Corkill, Dan; Costanzo, Maria; Cox, Steven; Crouse, Andrew; Crowder, Camerron; Crumbley, Mary E.; Dai, Cheng; Azevedo, Ricardo De Miranda; Deutsch, Eric; Dougherty, Jennifer; Duvvuri, Venkata; Edwards, Stephen; Emonet, Vincent; Fehrmann, Nathaniel; Flannick, Jason; Foksinska, Aleksandra M.; Gardner, Vicki; Gatica, Edgar; Glen, Amy; Goel, Prateek; Gormley, Joseph; Greyber, Alon; Haaland, Perry; Haendel, Melissa A.; Hanspers, Kristina; He, Kaiwen; Henrickson, Jeff; Hoatlin, Maureen; Hoffman, Andrew; Huang, Conrad; Hubal, Robert; Huellas‐Bruskiewicz, Kenneth; Huls, Forest B.; Hunter, Lawrence; Issabekova, Tursynay; Jarrell, Matthew; Jenkins, Lindsay; Joshi, Arpita; Kang, Jimin; Kanwar, Richa; Kebede, Yaphet; Kim, Keum Joo; Kluge, Alexandria; Knowles, Michael; Koesterer, Ryan; Korn, Daniel; Koslicki, David; Krishnamurthy, Ashok; Kvarfordt, Lindsey; Lee, Jay; Leigh, Margaret; Lin, Jason; Liu, Zheng; Liu, Shaopeng; Chunyu; Magis, Andrew; Mamidi, Tarun; Mandal, Meisha; Mantilla, Michelle; Massung, Jeffrey; Mauldin, Denise; Mcclelland, Jason; Mcmurry, Julie; Mease, Philip; Mendoza, Luis; Mersmann, Marian; Mesbah, Abrar; Might, Matthew; Morton, Kenny; Moxon, Sierra A.T.; Muller, Sandrine; Muluka, Arun Teja; Mungall, Christopher J.; Osborne, John; Owen, Phil; Patton, Michael; Peden, David B.; Peene, R. Carter; Persaud, Bria; Pfaff, Emily; Pico, Alexander; Pollard, Elizabeth; Price, Guthrie; Putman, Tim; Raj, Shruti; Ramsey, Stephen A.; Reilly, Jason; Riutta, Anders; Roach, Jared; Rosenblatt, Greg; Rubin, Irit; Rucka, Sienna; Rudavsky‐Brody, Nathaniel; Sakaguchi, Rayn; Santos, Eugene; Schaper, Kevin; Schmitt, Charles P.; Schurman, Shepherd; Scott, Erik; Seitanakis, Sarah; Sharma, Priya; Shefchek, Kent A.; Shmulevich, Ilya; Shrestha, Manil; Shrivastava, Shalki; Sinha, Meghamala; Smith, Brett; Solbrig, Harold; Soman, Karthik; Southern, Nicholas; Stillwell, Lisa; Strasser, Michael “ Michi”; Tinglin, Jillian; Tonstad, Lucas; Tran‐Nguyen, Thi; Tropsha, Alexander; Unni, Deepak R.; Vaidya, Gaurav; Veenhuis, Luke; Viola, Adam; Grotthuss, Marcin; Wang, Max; Wang, Patrick; Weber, Rosina; Wei, Qi; Weng, Chunhua; Whitlock, Jordan; Williams, Andrew; Womack, Finn; Wood, Erica; Wu, Chunlei; Xin, Jiwen Kevin; Xu, Colleen; Yakaboski, Chase; Yao, Yao; Yi, Hong; Yilmaz, Arif; Zheng, Marissa; Zhou, Xinghua; Zhou, Eric; Zisk, Tom
Source
Clinical and Translational Science (Periodical). August 2022, Vol. 15 Issue 8, p1838, 10 p.
Subject
Language
English
ISSN
1752-8054
Abstract
INTRODUCTION The breadth and diversity of biomedical data available today hold great promise in the application of such data into actionable outcomes aimed at accelerating translational science and ultimately improving [...]
: Clinical, biomedical, and translational science has reached an inflection point in the breadth and diversity of available data and the potential impact of such data to improve human health and well‐being. However, the data are often siloed, disorganized, and not broadly accessible due to discipline‐specific differences in terminology and representation. To address these challenges, the Biomedical Data Translator Consortium has developed and tested a pilot knowledge graph‐based “Translator” system capable of integrating existing biomedical data sets and “translating” those data into insights intended to augment human reasoning and accelerate translational science. Having demonstrated feasibility of the Translator system, the Translator program has since moved into development, and the Translator Consortium has made significant progress in the research, design, and implementation of an operational system. Herein, we describe the current system’s architecture, performance, and quality of results. We apply Translator to several real‐world use cases developed in collaboration with subject‐matter experts. Finally, we discuss the scientific and technical features of Translator and compare those features to other state‐of‐the‐art, biomedical graph‐based question‐answering systems.
: Clinical, biomedical, and translational science has reached an inflection point in the breadth and diversity of available data and the potential impact of such data to improve human health and well‐being. However, the data are often siloed, disorganized, and not broadly accessible due to discipline‐specific differences in terminology and representation. To address these challenges, the Biomedical Data Translator Consortium has developed and tested a pilot knowledge graph‐based “Translator” system capable of integrating existing biomedical data sets and “translating” those data into insights intended to augment human reasoning and accelerate translational science. Having demonstrated feasibility of the Translator system, the Translator program has since moved into development, and the Translator Consortium has made significant progress in the research, design, and implementation of an operational system. Herein, we describe the current system’s architecture, performance, and quality of results. We apply Translator to several real‐world use cases developed in collaboration with subject‐matter experts. Finally, we discuss the scientific and technical features of Translator and compare those features to other state‐of‐the‐art, biomedical graph‐based question‐answering systems.