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- # -*- Mode: Text; tab-width: 2; indent-tabs-mode: nil; coding: utf-8; -*-
- # vim:set ft=conf ts=2 sw=2 sts=2 autoindent:
- # Simple text-based definitions of entity, relation and event types
- # and event attributes.
- [entities]
- Gene_or_gene_product
- Cell_type
- Core_Angiogenesis_Term
- Drug_or_compound
- Other_pharmaceutical_agent
- Pathway
- Tissue
- Not_sure
- Other
- [relations]
- Equiv Arg1:Gene_or_gene_product, Arg2:Gene_or_gene_product
- Equiv Arg1:Cell_type, Arg2:Cell_type
- Equiv Arg1:Drug_or_compound, Arg2:Drug_or_compound
- Equiv Arg1:Other_pharmaseutical_agent, Arg2:Other_pharmaseutical_agent
- Equiv Arg1:Pathway, Arg2:Pathway
- Equiv Arg1:Tissue, Arg2:Tissue
- # Permitted entity nestings. Defines which entity mention spans in
- # text can be contained in which by type. Arg1 identifies the type of
- # the inner, Arg2 the type of the outer entity.
- ENTITY-NESTING Arg1:Cell_type, Arg2:Tissue
- ENTITY-NESTING Arg1:Tissue, Arg2:Cell_type
- ENTITY-NESTING Arg1:Gene_or_gene_product, Arg2:Tissue
- ENTITY-NESTING Arg1:Gene_or_gene_product, Arg2:Cell_type
- ENTITY-NESTING Arg1:Gene_or_gene_product, Arg2:Pathway
- ENTITY-NESTING Arg1:Gene_or_gene_product, Arg2:Drug_or_compound
- ENTITY-NESTING Arg1:Gene_or_gene_product, Arg2:Other_pharmaceutical_agent
- # Currently allowing anything for the non-specific types
- ENTITY-NESTING Arg1:<ANY>, Arg2:Other
- ENTITY-NESTING Arg1:<ANY>, Arg2:Not_sure
- ENTITY-NESTING Arg1:<ANY>, Arg2:Other_entity
- ENTITY-NESTING Arg1:<ANY>, Arg2:Not_sure_entity
- [events]
- <CORE-ENTITY>=Gene_or_gene_product|Drug_or_compound
- <CELLS>=Cell_type|Tissue
- Gene_expression Theme:Gene_or_gene_product
- Transcription Theme:Gene_or_gene_product
- Binding Theme+:<CORE-ENTITY>
- Localisation Theme:<CORE-ENTITY>, toLoc?:<CELLS>, atLoc?:<CELLS>, fromLoc?:<CELLS>
- Phosphorylation Theme:Gene_or_gene_product
- ---------
- Regulation Theme:<ENTITY>|<EVENT>, Cause?:<ENTITY>|<EVENT>
- Positive_regulation Theme:<ENTITY>|<EVENT>, Cause?:<ENTITY>|<EVENT>
- Negative_regulation Theme:<ENTITY>|<EVENT>, Cause?:<ENTITY>|<EVENT>
- Inhibition Theme:<ENTITY>|<EVENT>|Core_Angiogenesis_Term, Cause?:<ENTITY>|<EVENT>
- Stimulation Theme:<ENTITY>|<EVENT>|Core_Angiogenesis_Term, Cause?:<ENTITY>|<EVENT>
- --------------------
- Sub-Process Theme?:<ENTITY>
- [attributes]
- Negation Arg:<EVENT>
- Speculation Arg:<EVENT>
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