Computing Science
Inference

Below are some things that I thought might be useful to have in one place. This list is not complete and in no particular order ...

What is Text Mining? by Marti Hearst

A survey of current work in biomedical text mining by Cohen and Hersh

Example Systems

• MEDIE
• Chilibot - extracts protein protein interactions from text using a given list of possible players.
• PreBIND - extracts protein protein interactions from Medline based on a query. Used to help with curating the BIND database.
• EBIMed - a term cooccurrence search engine. It combines the GO terms with drug and protein names.
• Protein Corral - a protein protein interaction extraction engine from EBI
• Information Hyperlinked over Proteins (iHOP) - protein-search based IR engine
• BioNLP@Stanford
• BioRAT

Tools

GATE - OpenNLP - LingPipe - JULIE lib