BioCreative 2015 - BioCreative V Challenge and Workshop

BioCreative V Challenge and Workshop
September 9-11, 2015 Seville, Spain
BioCreative: Critical Assessment of Information Extraction in Biology is a community-wide effort for evaluating text mining and information extraction systems applied to the biological domain. Built on the success of the previous BioCreative Challenge Evaluations and Workshops (BioCreative I, II, II.5, III, 2012 workshop, and IV) the BioCreative Organizing Committee will host the BioCreative V Challenge in Seville, Spain on September 9-11, 2015. One key goal of BioCreative is the active involvement of the text mining user community in the design of the tracks, preparation of corpus and the testing of interactive systems. For BioCreative V, the selection of the tracks has been driven in part by suggestions from the biocuration community, by our goal of addressing interoperability -- a major barrier to adoption to text mining tools --, and via an open call for tasks of interest to both the bioNLP and user communities.
BioCreative V will consist of five tracks. Teams can participate in one or more of these tracks. Team registration started on January 1, 2015 and will continue until final commitment is requested by the individual tracks.
To register a team go to http://www.biocreative.org/events/biocreative-v/bi...
Funds are available for US participants to attend BioCreative 5. Information on how to apply will follow. Women, under-represented minorities, students, and post-doctoral fellows are encouraged to apply.
? Track 1: Collaborative Biocurator Assistant Task (BioC) ? Development of BioC-compatible modules which complement each other and an integrated system that assists BioGRID curators. A non-competitive, cooperative task in which participants work together to build a better system.
Organizers: Sun Kim, Donald Comeau, Rezarta Islamaj Dogan, Andrew Chatr-aryamontri and W. John Wilbur
Important Dates
March 2015: Deadline for participation
Mar-May. 2015: Developing individual systems and iterative system integration
June 2015: Individual systems due date
June-July 2015: Overall system evaluation
August 2015: Manuscript deadline for meeting proceedings
URL: http://www.biocreative.org/tasks/biocreative-v/tra...
? Track 2: CHEMDNER patents: Identification of chemical compounds and of relevant biological context in patents.
Organizers: Martin Krallinger, Alfonso Valencia, Florian Leitner, Obdulia Rabal and Julien Oyarzabal
Important Dates
February 2015: Sample set release together with annotation guidelines
April 2015: Training set release
May 2015: Development set release
July 2015: Test set release
August 2015: The evaluated results returned to the participants
beginning of September 2015: The camera ready system description write ups
URL: http://www.biocreative.org/tasks/biocreative-v/tra...
? Track 3: Chemical-disease relation (CDR) task - Automatic detection of chemical/drugs and diseases, and their relations in PubMed abstracts. In particular, the CDR task focuses on extracting the relationship of drug-induced diseases.
Organizers: Zhiyong Lu and Thomas Wiegers
Important Dates
February-March, 2015: Release of training data
April-May, 2015: Release of development data
July, 2015: Release of test data
July-August, 2015 team submissions due
August-Early September, 2015 Team workshop paper due
URL: http://www.biocreative.org/tasks/biocreative-v/tra...
? Track 4: Extraction of causal network information in Biological Expression Language (BEL) - Text mining solutions to develop and test novel approaches for relation extraction in the context of pathway networks. The goal is to assess the utility of such tools for the automated annotation and network expansion, and their suitability as supporting tools for assisted curation.
Organizers: Fabio Rinaldi, Sam Ansari and Juliane Fluck
Important Dates
February 15, 2015: Release training data
April 27, 2015: Release test data
April 30, 2015: Submission of results deadline
June 15, 2015: Delivery of evaluation results
July 1, 2015: Paper submission
August 15, 2015: Camera-ready
URL: http://www.biocreative.org/tasks/biocreative-v/tra...
? Track 5: Interactive Curation (IAT): Demonstration and evaluation of web-based systems addressing user-defined tasks, evaluated by curators on performance and usability.
Organizers: Catalina Oana Tudor and Cecilia Arighi
Important Dates
January 31, 2015: Submission of letter of intent by teams
March 1 2015: Submission of system document by teams
March 15 2015: Notification of accepted systems
March-May 2015: Systems development
Mid-June 2015: Individual systems ready for user testing
June-July 2015: Overall system evaluation by curators
August 2015: Manuscript deadline for meeting proceedings
URL: http://www.biocreative.org/tasks/biocreative-v/tra...