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BioCreative Virtual Issue

EDITORIAL

BioCreative - 2012 Virtual Issue
Cathy H. Wu, Cecilia N. Arighi, Kevin B. Cohen, Lynette Hirschman, Martin Krallinger, Zhiyong Lu, Carolyn Mattingly, Alfonso Valencia, Thomas C. Wiegers, and W. John Wilbur
Database Vol. 2012, bas049; doi:10.1093/database/bas049
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TRACK 1

Collaborative biocuration—text-mining development task for document prioritization for curation
Thomas C. Wiegers, Allan Peter Davis, and Carolyn J. Mattingly
Database Vol. 2012, bas037; doi:10.1093/database/bas037
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Prioritizing PubMed articles for the Comparative Toxicogenomic Database utilizing semantic information
Sun Kim, Won Kim, Chih-Hsuan Wei, Zhiyong Lu, and W. John Wilbur
Database Vol. 2012, bas042; doi:10.1093/database/bas042
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Using the OntoGene pipeline for the triage task of BioCreative 2012
Fabio Rinaldi, Simon Clematide, Simon Hafner, Gerold Schneider, Gintarė Grigonytė, Martin Romacker, and Therese Vachon
Database Vol. 2013, bas053; doi:10.1093/database/bas053
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Using binary classification to prioritize and curate articles for the Comparative Toxicogenomics Database
Dina Vishnyakova, Emilie Pasche, and Patrick Ruch
Database Vol. 2012, bas050; doi:10.1093/database/bas050
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TRACK 2

Biocuration workflows and text mining: overview of the BioCreative 2012 Workshop Track II
Zhiyong Lu and Lynette Hirschman
Database Vol. 2012, bas043; doi:10.1093/database/bas043
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Text mining in the biocuration workflow: applications for literature curation at WormBase, dictyBase and TAIR
Kimberly Van Auken, Petra Fey, Tanya Z. Berardini, Robert Dodson, Laurel Cooper, Donghui Li, Juancarlos Chan, Yuling Li, Siddhartha Basu, Hans-Michael Muller, Rex Chisholm, Eva Huala, Paul W. Sternberg and the WormBase Consortium
Database Vol. 2012, bas040; doi:10.1093/database/bas040
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Building an efficient curation workflow for the Arabidopsis literature corpus
Donghui Li, Tanya Z. Berardini, Robert J. Muller, and Eva Huala
Database Vol. 2012, bas047; doi:10.1093/database/bas047
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Manual Gene Ontology annotation workflow at the Mouse Genome Informatics Database
Harold J. Drabkin, Judith A. Blake, for the Mouse Genome Informatics Database
Database Vol. 2012, bas045; doi:10.1093/database/bas045
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The Xenbase literature curation process
Jeff B. Bowes, Kevin A. Snyder, Christina James-Zorn, Virgilio G. Ponferrada, Chris J. Jarabek, Kevin A. Burns, Bishnu Bhattacharyya, Aaron M. Zorn, and Peter D. Vize
Database Vol. 2013, bas046; doi:10.1093/database/bas046
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Opportunities for text mining in the FlyBase genetic literature curation workflow
Peter McQuilton and the FlyBase Consortium
Database Vol. 2012, bas039; doi:10.1093/database/bas039
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Developing a biocuration workflow for AgBase, a non-model organism database
Lakshmi Pillai, Philippe Chouvarine, Catalina O. Tudor, Carl J. Schmidt, K. Vijay-Shanker, and Fiona M. McCarthy
Database Vol. 2012, bas038; doi:10.1093/database/bas038
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TRACK 3

An overview of the BioCreative 2012 Workshop Track III: interactive text mining task
Cecilia N. Arighi, Ben Carterette, K. Bretonnel Cohen, Martin Krallinger, W. John Wilbur, Petra Fey, Robert Dodson, Laurel Cooper, Ceri E. Van Slyke, Wasila Dahdul, Paula Mabee, Donghui Li, Bethany Harris, Marc Gillespie, Silvia Jimenez, Phoebe Roberts, Lisa Matthews, Kevin Becker, Harold Drabkin, Susan Bello, Luana Licata, Andrew Chatr-aryamontri, Mary L. Schaeffer, Julie Park, Melissa Haendel, Kimberly Van Auken, Yuling Li, Juancarlos Chan, Hans-Michael Muller, Hong Cui, James P. Balhoff, Johnny Chi-Yang Wu, Zhiyong Lu, Chih-Hsuan Wei, Catalina O. Tudor, Kalpana Raja, Suresh Subramani, Jeyakumar Natarajan, Juan Miguel Cejuela, Pratibha Dubey, and Cathy Wu
Database Vol. 2013, bas056; doi:10.1093/database/bas056
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PPInterFinder — a mining tool for extracting causal relations on human proteins from literature
Kalpana Raja, Suresh Subramani, and Jeyakumar Natarajan
Database Vol. 2013, bas052; doi:10.1093/database/bas052
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The eFIP system for text mining of protein interaction networks of phosphorylated proteins
Catalina O. Tudor, Cecilia N. Arighi, Qinghua Wang, Cathy H. Wu, and K. Vijay-Shanker
Database Vol. 2012, bas044; doi:10.1093/database/bas044
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T-HOD: a literature-based candidate gene database for hypertension, obesity and diabetes
Hong-Jie Dai, Johnny Chi-Yang Wu, Richard Tzong-Han Tsai, Wen-Harn Pan, and Wen-Lian Hsu
Database Vol. 2013, bas061; doi:10.1093/database/bas061
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Accelerating literature curation with text-mining tools: a case study of using PubTator to curate genes in PubMed abstracts
Chih-Hsuan Wei, Bethany R. Harris, Donghui Li, Tanya Z. Berardini, Eva Huala, Hung-Yu Kao, and Zhiyong Lu
Database Vol. 2012, bas041; doi:10.1093/database/bas041
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