135. Comparative Functional Genomics 

George M. Church, Pam Ralston, Martha Bulyk, Abby McGuire, Rob Mitra, Saeed Tavazoie, and Jason Hughes 
Department of Genetics, Harvard Medical School, Boston, Massachusetts 
church@arep.med.harvard.edu 

We have developed technologies for annotating genome sequences, including intergenic regions and regulon/operon comparisons. Performing enzymatic reactions on oligonucleotide chips or microarrays (of kbp-sized DNA) allowing us to replicate DNA chips using microcontact printing. RNA quantitations from chip, microarray and SAGE can be merged, clustered, and the motifs mechanistically responsible for the clusters of coregulated RNAs can be determined. Methods for measuring and modeling in vivo concentrations of protein, RNA, metabolite, protein interactions and mutant growth rates in response to diverse environments provide the foundations for a genome sequence function database. 

Nature Biotech. 16:566-571; Nature Biotech. 16: 939-945; J. Molec. Biol. 284: 241-254. (http://arep.med.harvard.edu)