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Page 1
Transcriptional regulatory code of a eukaryotic genome.
Harbison CT, Gordon DB, Lee TI, Rinaldi NJ, Macisaac KD, Danford TW, Hannett NM, Tagne JB, Reynolds DB, Yoo J, Jennings EG, Zeitlinger J, Pokholok DK, Kellis M, Rolfe PA, Takusagawa KT, Lander ES, Gifford DK, Fraenkel E, Young RA. Harbison CT, et al. Among authors: danford tw. Nature. 2004 Sep 2;431(7004):99-104. doi: 10.1038/nature02800. Nature. 2004. PMID: 15343339 Free PMC article.
High-resolution computational models of genome binding events.
Qi Y, Rolfe A, MacIsaac KD, Gerber GK, Pokholok D, Zeitlinger J, Danford T, Dowell RD, Fraenkel E, Jaakkola TS, Young RA, Gifford DK. Qi Y, et al. Nat Biotechnol. 2006 Aug;24(8):963-70. doi: 10.1038/nbt1233. Nat Biotechnol. 2006. PMID: 16900145
Core transcriptional regulatory circuitry in human hepatocytes.
Odom DT, Dowell RD, Jacobsen ES, Nekludova L, Rolfe PA, Danford TW, Gifford DK, Fraenkel E, Bell GI, Young RA. Odom DT, et al. Among authors: danford tw. Mol Syst Biol. 2006;2:2006.0017. doi: 10.1038/msb4100059. Epub 2006 May 2. Mol Syst Biol. 2006. PMID: 16738562 Free PMC article.
Discovering regulatory overlapping RNA transcripts.
Danford T, Dowell R, Agarwala S, Grisafi P, Fink G, Gifford D. Danford T, et al. J Comput Biol. 2011 Mar;18(3):295-303. doi: 10.1089/cmb.2010.0267. J Comput Biol. 2011. PMID: 21385035
Genotype to phenotype: a complex problem.
Dowell RD, Ryan O, Jansen A, Cheung D, Agarwala S, Danford T, Bernstein DA, Rolfe PA, Heisler LE, Chin B, Nislow C, Giaever G, Phillips PC, Fink GR, Gifford DK, Boone C. Dowell RD, et al. Science. 2010 Apr 23;328(5977):469. doi: 10.1126/science.1189015. Science. 2010. PMID: 20413493 Free PMC article.
Zebrafish promoter microarrays identify actively transcribed embryonic genes.
Wardle FC, Odom DT, Bell GW, Yuan B, Danford TW, Wiellette EL, Herbolsheimer E, Sive HL, Young RA, Smith JC. Wardle FC, et al. Among authors: danford tw. Genome Biol. 2006;7(8):R71. doi: 10.1186/gb-2006-7-8-R71. Epub 2006 Aug 4. Genome Biol. 2006. PMID: 16889661 Free PMC article.