I am working on integrating pathway relations into a pathway diagram. I have two text mining solutions that I use to find interactions. I am looking for new suggestions. The idea is that I provide a pathway entity (ie. gene/protein, metabolite) and all relations based on the literature are returned.
I am using Whatizit: http://www.ebi.ac.uk/webservices/whatizit/info.jsf and Phasar: http://www.phasar.cs.ru.nl/. The first works decently, the second has issues with performance and accessibility.
Could you please tell us which are the two text mining solutions that you already have?
I need to add Chilibot (http://www.chilibot.net/) and Agilents literature plugin for Cytoscape to this question/answer serie (http://www.agilent.be/labs/research/litsearch.html)