AMIA 2012 TBI Tutorial
Reusing EHRs for clinical, genomic, and pharmacogenomic discovery at Vanderbilt and within the eMERGE network
- http://gskinner.com/RegExr/ - interface to try RegEx's
Find everyone with Atrial fibrillation
- First, cut and paste the ECG impressions above into the RegEx browser
- Then, create regular expressions to find all instances of Atrial fibrillation
- Find everyone with evidence of a heart attack (myocardial infarction) or active ischemia, using the same dataset
Cut and paste the clinical note into the RegEx browser
- Find all occurences of "peripheral vascular disease" (and its synonyms). How many did you find?
- Has this person had a heart attack yet?
Type II Diabetes Algorithm
Cases & Controls: http://phekb.org/phenotype/type-ii-diabetes-mellitus
Task 1: Compare the differences between concept and word searching
We have generated a test version of a evidenced-based medicine / medication info search that we use from our EMR.
This searches the KnowledgeMap curriculum website (contains about 25,000 documents from medical and resident curricula at Vanderbilt). Try any search, but here are a few examples to try:
- mad cow disease (or "BSE")
- hepatolenticular degeneration
Task 2: View example H&P document and concept index.
This represents the most "human readable" output though clearly for computational purposes other outputs are of greater value.
|ecgimpressions.txt - Example ECG Impressions for RegEx exercise||1020 bytes|
|hp_doc.txt - Example H&P document||3.9 KB|
|hp_doc_qt.txt.gold_.html - Example "human readable" KM output||50.61 KB|