TEXT MINING IN BIOMEDICAL RESEARCHQI LI

03/28/14

REFERENCES

1. http://en.wikipedia.org/wiki/Text_mining

2. D. Rebholz-Schuhmann et al., Text-mining solutions for biomedical research: enabling integrative biology, Nature Reviews Genetics 13, 829-839 (December 2012)

3. R. King et al., The Automation of Science, Science 324, 85 (2009)

4. http://www.aber.ac.uk/~dcswww/Research/bio/robotsci/

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: http://www1.plymouth.ac.uk/courses/undergraduate/0732/pages/coursedetail.aspx

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: http://www.aber.ac.uk/en/cs/research/cb/projects/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!

• http://www.aber.ac.uk/en/cs/research/cb/projects/robotscientist/video/

THANK YOU!