TY - JOUR
T1 - Collaborative workspaces for pathway curation
AU - Durupinar-Babur, Funda
AU - Siper, Metin Can
AU - Dogrusoz, Ugur
AU - Bahceci, Istemi
AU - Babur, Ozgun
AU - Demir, Emek
N1 - Funding Information:
This work was funded by the DARPA Big Mechanism program under ARO contract W911NF-14-1-0395.
Publisher Copyright:
© 2016, CEUR-WS. All rights reserved.
PY - 2016
Y1 - 2016
N2 - We present a web based visual biocuration workspace, focusing on curating detailed mechanistic pathways. It was designed as a flexible platform where multiple humans, NLP and AI agents can collaborate in real-time on a common model using an event driven API. We will use this platform for exploring disruptive technologies that can scale up biocuration such as NLP, human-computer collaboration, crowd-sourcing, alternative publishing and gamification. As a first step, we are designing a pilot to include an author-curation step into the scientific publishing, where the authors of an article create formal pathway fragments representing their discovery- heavily assisted by computer agents. We envision that this "microcuration" use-case will create an excellent opportunity to integrate multiple NLP approaches and semi-automated curation.
AB - We present a web based visual biocuration workspace, focusing on curating detailed mechanistic pathways. It was designed as a flexible platform where multiple humans, NLP and AI agents can collaborate in real-time on a common model using an event driven API. We will use this platform for exploring disruptive technologies that can scale up biocuration such as NLP, human-computer collaboration, crowd-sourcing, alternative publishing and gamification. As a first step, we are designing a pilot to include an author-curation step into the scientific publishing, where the authors of an article create formal pathway fragments representing their discovery- heavily assisted by computer agents. We envision that this "microcuration" use-case will create an excellent opportunity to integrate multiple NLP approaches and semi-automated curation.
KW - Biocuration
KW - Pathways
UR - http://www.scopus.com/inward/record.url?scp=85018775435&partnerID=8YFLogxK
UR - http://www.scopus.com/inward/citedby.url?scp=85018775435&partnerID=8YFLogxK
M3 - Conference article
AN - SCOPUS:85018775435
VL - 1747
JO - CEUR Workshop Proceedings
JF - CEUR Workshop Proceedings
SN - 1613-0073
T2 - 2016 Joint International Conference on Biological Ontology and BioCreative - Food, Nutrition, Health and Environment for the 9 Billion, ICBO-BioCreative 2016
Y2 - 1 August 2016 through 4 August 2016
ER -