The Nashville Scene recently did an article about Innovators in middle Tennessee. They featured PheWAS as one of 11 "groundbreaking" innovations. See section "Model Behavior" in the Nashville Scene article.
Nature Biotech featured PheWAS paper as one of the top computational biology innovations in 2010.http://www.nature.com/nbt/journal/v29/n1/full/nbt0111-46.html
A paper on a terminology of section headers received the 2008 Homer Warner Award: Denny JC, Miller RA, Johnson KB, Spickard A 3rd. Development and evaluation of a clinical note section header terminology. AMIA Annu Symp Proc. 2008 Nov 6:156-60.