Chemical named entity recognition and literature mark-up

Chemical named entity recognition and literature mark-up Colin Batchelor Informatics Department Royal Society of Chemistry [email_address]

Overview ,[object Object],[object Object],[object Object]

Project Prospect: What do we find? ,[object Object],[object Object],[object Object],[object Object],[object Object]

Project Prospect: How do we find it? ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]

RDF: how we do it now ,[object Object],[object Object],[object Object],[object Object]

RDF: what it looks like now ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]

Basics for a chemical ontology ,[object Object],[object Object]

Basics for a chemical ontology: 1. Objects of chemical discourse ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]

The imidazole side-chain/group/ring

Can ChEBI handle this? ,[object Object],[object Object],[object Object],[object Object],[object Object]

Disambiguation ,[object Object],[object Object],[object Object],[object Object]

Disambiguation: What a one sense per collocation feature set might look like ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]

Basics for a chemical ontology: 2. Parthood relations ,[object Object],[object Object],[object Object]

Basics for a chemical ontology: 2. Parthood relations ,[object Object],[object Object],[object Object],[object Object]

Basics for a chemical ontology: 2. Parthood relations ,[object Object],[object Object]

Basics for a chemical ontology: 2. Parthood relations ,[object Object],[object Object],[object Object],[object Object],[object Object]

Open questions ,[object Object],[object Object],[object Object]

Acknowledgements ,[object Object],[object Object],[object Object]

Chemical named entity recognition and literature mark-up

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Chemical named entity recognition and literature mark-up