Publications

Clark AG, Eisen MB, Smith DR, Bergman CM, Oliver B, Markow TA, Kaufman TC, Kellis M, Gelbart W, Iyer VN et al.. 2007. Evolution of genes and genomes on the Drosophila phylogeny.. Nature. 450(7167):203-18.

Dogan RIslamaj, Getoor L, W. Wilbur J, Mount SM. 2007. Features generated for computational splice-site prediction correspond to functional elements. BMC BioinformaticsBMC Bioinformatics. 8

Dogan RIslamaj, Getoor L, W Wilbur J, Mount SM. 2007. Features generated for computational splice-site prediction correspond to functional elements.. BMC Bioinformatics. 8:410.

Zhang Y, Rath N, Hannenhalli S, Wang Z, Cappola T, Kimura S, Atochina-Vasserman E, Lu MMin, Beers MF, Morrisey EE. 2007. GATA and Nkx factors synergistically regulate tissue-specific gene expression and development in vivo. DevelopmentDevelopment. 134

Myers GSA, Parker D, Al-Hasani K, Kennan RM, Seemann T, Ren Q, Badger JH, Selengut JD, DeBoy RT, Tettelin H et al.. 2007. Genome sequence and identification of candidate vaccine antigens from the animal pathogen Dichelobacter nodosus.. Nat Biotechnol. 25(5):569-75.

Myers GSA, Parker D, Al-Hasani K, Kennan RM, Seemann T, Ren Q, Badger JH, Selengut J., DeBoy RT, Tettelin H et al.. 2007. Genome sequence and identification of candidate vaccine antigens from the animal pathogen Dichelobacter nodosus. Nature biotechnologyNature biotechnology. 25

Yang S., Wang K., Valladares O., Hannenhalli S, Bucan M.,. 2007. Genome-wide expression profiling and bioinformatics analysis of diurnally regulated genes in the mouse prefrontal cortex. Genome BiolGenome Biol. 8

Wang J., Ungar L.H, Tseng H., Hannenhalli S. 2007. MetaProm: a neural network based meta-predictor for alternative human promoter prediction. BMC genomicsBMC Genomics. 8

Darling AE, Treangen T, Messeguer X, Perna NT. 2007. Methods in Molecular BiologyComparative GenomicsAnalyzing Patterns of Microbial Evolution Using the Mauve Genome Alignment System. 396:135-152.

Waisberg M, Lobo F, Cerqueira G, Passos L, Carvalho O, Franco G, El‐Sayed NM. 2007. Microarray analysis of gene expression induced by sexual contact in Schistosoma mansoni. BMC GenomicsBMC Genomics. 8

Mulder NJ, Apweiler R, Attwood TK, Bairoch A, Bateman A, Binns D, Bork P, Buillard V, Cerutti L, Copley R et al.. 2007. New developments in the InterPro database.. Nucleic Acids Res. 35(Database issue):D224-8.

Vardhanabhuti S, Wang J, Hannenhalli S. 2007. Position and distance specificity are important determinants of cis-regulatory motifs in addition to evolutionary conservation. Nucleic Acids ResearchNucleic Acids Research. 35

Dogan RIslamaj, Getoor L, W Wilbur J, Mount SM. 2007. SplicePort--an interactive splice-site analysis tool.. Nucleic Acids Res. 35(Web Server issue):W285-91.

Dogan R.I, Getoor L, Wilbur W.J, Mount SM. 2007. SplicePort--An interactive splice-site analysis tool. Nucleic Acids ResearchNucleic Acids Research. 35

Selengut J., Haft DH, Davidsen T, Ganapathy A, Gwinn-Giglio M, Nelson WC, R. Richter A, White O. 2007. TIGRFAMs and Genome Properties: tools for the assignment of molecular function and biological process in prokaryotic genomes. Nucleic acids researchNucleic Acids Research. 35

Singh L.N, Wang L.S, Hannenhalli S. 2007. TREMOR—a tool for retrieving transcriptional modules by incorporating motif covariance. Nucleic acids researchNucleic Acids Research. 35

Alam M., Sultana M., Nair G.B, Siddique A.K, Hasan N.A, Sack R.B, Sack D.A, Ahmed K.U, Sadique A., Watanabe H. et al.. 2007. Viable but nonculturable Vibrio cholerae O1 in biofilms in the aquatic environment and their role in cholera transmission. Proceedings of the National Academy of SciencesProceedings of the National Academy of Sciences. 104

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