Biomedical Text Mining Tools

If you are looking for new ways to search & mine PubMed and other databases from NCBI, try this website: http://arrowsmith.psych.uic.edu/arrowsmith_uic/index.html .

I like ADAM for trying to figure out the myriad of ways researchers refer to the Factor V Leiden mutation (FVL, for example) or IL2 or any number of gene expression notations, drugs, and other entities that can be written in a shortened form.

I tried the "Anne O'Tate" tool for data mining a search on melanoma and tumor growth factors that gave me over 3,000 citations. There was a facet called "Topics" that pulled out 5,000 discrete topics along with a count of articles mentioning these new terms. I can use these to refine or expand my search. There is a facet for "Authors" that can tell you who's who in a certain area of research as well.

Keep in mind that these tools are experimental, but could be real time-savers, or better yet, great sources of epiphanies about your own research. Give them a try!