title: MET network in PubMed: a text-mined network visualization and curation system.
abstract: Metastasis is the dissemination of a cancer/tumor from one organ to another, and it is the most dangerous stage during cancer progression, causing more than 90% of cancer deaths. Improving the understanding of the complicated cellular mechanisms underlying metastasis requires investigations of the signaling pathways. To this end, we developed a METastasis (MET) network visualization and curation tool to assist metastasis researchers retrieve network information of interest while browsing through the large volume of studies in PubMed. MET can recognize relations among genes, cancers, tissues and organs of metastasis mentioned in the literature through text-mining techniques, and then produce a visualization of all mined relations in a metastasis network. To facilitate the curation process, MET is developed as a browser extension that allows curators to review and edit concepts and relations related to metastasis directly in PubMed. PubMed users can also view the metastatic networks integrated from the large collection of research papers directly through MET. For the BioCreative 2015 interactive track (IAT), a curation task was proposed to curate metastatic networks among PubMed abstracts. Six curators participated in the proposed task and a post-IAT task, curating 963 unique metastatic relations from 174 PubMed abstracts using MET.Database URL: http://btm.tmu.edu.tw/metastasisway.
authors.affiliation: Department of Computer Science and Information Engineering, National Taitung University, Taiwan, R.O.C Interdisciplinary Program of Green and Information Technology, National Taitung University, Taiwan R.O.C. hjdai@nttu.edu.tw.
authors.forename: Hong-Jie
authors.initials: HJ
authors.lastname: Dai
authors.affiliation: Institute of Information Science, Academia Sinica, Taiwan, R.O.C.
authors.forename: Chu-Hsien
authors.initials: CH
authors.lastname: Su
authors.affiliation: Institute of Information Science, Academia Sinica, Taiwan, R.O.C Department of Computer Science, National Tsing-Hua University, Taiwan, R.O.C.
authors.forename: Po-Ting
authors.initials: PT
authors.lastname: Lai
authors.affiliation: Institute of Information Science, Academia Sinica, Taiwan, R.O.C.
authors.forename: Ming-Siang
authors.initials: MS
authors.lastname: Huang
authors.affiliation: School of Public Health and Community Medicine, University of New South Wales, New South Wales, Australia Prince of Wales Clinical School, University of New South Wales, New South Wales, Australia.
authors.forename: Jitendra
authors.initials: J
authors.lastname: Jonnagaddala
authors.affiliation: Prince of Wales Clinical School, University of New South Wales, New South Wales, Australia.
authors.forename: Toni
authors.initials: T
authors.lastname: Rose Jue
authors.affiliation: Innovation Center for Biomedical Informatics, Georgetown University, Washington, DC, USA.
authors.forename: Shruti
authors.initials: S
authors.lastname: Rao
authors.affiliation: Department of Computer Science, Rutgers University-Camden, Camden, NJ, USA.
authors.forename: Hui-Jou
authors.initials: HJ
authors.lastname: Chou
authors.affiliation: Department of Informatics and Bio-Computing, Ontario Institute for Cancer Research, Toronto, Ontario, Canada.
authors.forename: Marija
authors.initials: M
authors.lastname: Milacic
authors.affiliation: Graduate Institute of Biomedical Informatics, Taipei Medical University, Taiwan, R.O.C.
authors.forename: Onkar
authors.initials: O
authors.lastname: Singh
authors.affiliation: Graduate Institute of Biomedical Informatics, Taipei Medical University, Taiwan, R.O.C International Center for Health Information Technology, Taipei Medical University, Taipei, Taiwan R.O.C.
authors.forename: Shabbir
authors.initials: S
authors.lastname: Syed-Abdul
authors.affiliation: Institute of Information Science, Academia Sinica, Taiwan, R.O.C.
authors.forename: Wen-Lian
authors.initials: WL
authors.lastname: Hsu
mesh_terms: D019295:Computational Biology / Q000379:methods*; D066289:Data Curation; D057225:Data Mining / Q000379:methods*; D039781:PubMed; D012984:Software; D014584:User-Computer Interface