KDnuggets Home » News :: 2013 :: Jan :: Competitions :: BioNLP Shared Task: Text Mining for Biology Competition ( 13:n02 )

BioNLP Shared Task: Text Mining for Biology Competition

          

The BioNLP Shared Task series represents a community-wide trend in text-mining for biology toward fine-grained information extraction (IE). Datasets are now available.

BioNLP Shared Task 2013 - Training Data Release and First call for Participation

We are pleased to announce the start of the BioNLP Shared Task, the information extraction task for biology. It is open to any interested participants.

Data
We are beginning the release of training and development data sets of BioNLP shared task 2013. They are publicly available on the task Web pages of the BioNLP Shared Task 2013 website:
2013.bionlp-st.org/tasks

Illustration of annotations for events and coreferences

Registration
Registration for participation to the BioNLP Shared Task is required. Registration is open at the BioNLP Shared Task 2013 website:
2013.bionlp-st.org/participation

Workshop
The BioNLP ST workshop will be co-hosted with the ACL/HLT 2013 BioNLP workshop, to be held in Sofia, Bulgaria, August 8-9
Participants will be invited to submit manuscripts describing their systems to the BioNLP ST workshop.

Context
The BioNLP Shared Task series represents a community-wide trend in text-mining for biology toward fine-grained information extraction (IE).

The two previous events, the BioNLP 2009 and 2011 shared task attracted wide attention, with numerous teams submitting final results. The task setup and data have since served as the basis of numerous studies and published event extraction systems and datasets. The BioNLP Shared Task 2013 (BioNLP-ST'13) follows the general outline and goals of the previous tasks. It identifies biologically relevant extraction targets and proposes a linguistically motivated approach to event representation. BioNLP-ST'13 tasks also covers many new hot topics in the biology domain that are close to biologist needs.

As in previous editions, manually annotated data are provided for training, development and evaluation of the participating extraction methods.

The six BioNLP-ST 2013 event extraction tasks are

  • [GE] Genia Event Extraction for NFkB knowledge base construction
  • [CG] Cancer Genetics
  • [PC] Pathway Curation
  • [GRO] Corpus Annotation with Gene Regulation Ontology
  • [RNB] Gene Regulation Network in Bacteria
  • [BB] Microorganism Biotope (semantic annotation by an ontology)

For further information, please see the shared task website
2013.bionlp-st.org/

Schedule

  • Training Data Release 12:00 IDLW, 17 Jan. 2013
  • Test Data Release 22 Mar. 2013
  • Result Submission 29 Mar. 2013
  • BioNLP'11 Workshop 8-9 Aug. 2013

Organizing Committee Chair: Claire Nedellec (INRA)


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