TEXT MINING IN BIOMEDICAL RESEARCH QI LI 03/28/14

REFERENCES D. Rebholz-Schuhmann et al., Text-mining solutions for biomedical research: enabling integrative biology, Nature Reviews Genetics 13, (December 2012) 3. R. King et al., The Automation of Science, Science 324, 85 (2009)

THE USUAL WAY BIOMEDICAL RESEARCH IS DONE Read a lot of papers on a topic Propose one or more hypotheses Design a series of experiments Perform the experiments Prove or disprove the hypotheses Publish the results on a journal Pic:

WHY DO WE NEED TEXT MINING Scientists publish papers, not relations or data instances We need to reconstruct the knowledge out of the publications Then, computers will be able to help us analyze the knowledge base, probably bringing us new ideas

OVERVIEW OF THE PROCESS Figure: Text-mining solutions for biomedical research: enabling integrative biology [2]

SOME OF THE TECHNIQUES Figure: Text-mining solutions for biomedical research: enabling integrative biology [2]

ONE PROTOTYPE APPLICATION: ROBOT SCIENTIST “ADAM” Pics: /robotscientist/pictures/

NOT JUST EXPERIMENTS: HYPOTHESES GENERATION, TOO Gather information from a knowledge base Propose hypotheses Design a series of experiments Run the experiments physically Interpret the results Publish the results on a journal (NOT YET)

SEE IT IN ACTION! tscientist/video/ tscientist/video/

THANK YOU!