Computational and experimental characterizations of enhancer sequences. We have built cneBrowser, a database of ~200 conserved noncoding elements we have tested for enhancer activity in zebrafish. This is available at http://bioinformatics.bc.edu/chuanglab/cneBrowser/ . We have also built cneViewer, a web tool to identify conserved noncoding elements in the zebrafish genome based on their proximity to genes of known anatomical expression. This is available at http://bioinformatics.bc.edu/chuanglab/cneViewer/ .

Relevant pubs:
The Importance of Being Cis: Evolution of Orthologous Fish and Mammalian Enhancer Activity. Deborah I. Ritter, Qiang Li, Dennis Kostka, Katherine S. Pollard, Su Guo and Jeffrey H. Chuang. Mol Bio Evol 27:2322 (2010).

A systematic approach to identify functional motifs within vertebrate developmental enhancers. Qiang Li, Deborah Ritter, Nan Yang, Zhiqiang Dong, Hao Li, Jeffrey H. Chuang, Su Guo. Developmental Biology 337:484 (2009)

cneViewer: A Database of Conserved Noncoding Elements for Studies of Tissue-Specific Gene Regulation. J. Persampieri, D. I. Ritter, D. Lees, J. Lehoczky, Q. Li, S. Guo, and Jeffrey H. Chuang. Bioinformatics, 24:2418-2419 (2008).