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Global analysis of Drosophila Cys₂-His₂ zinc finger proteins reveals a multitude of novel recognition motifs and binding determinants.
Enuameh MS, Asriyan Y, Richards A, Christensen RG, Hall VL, Kazemian M, Zhu C, Pham H, Cheng Q, Blatti C, Brasefield JA, Basciotta MD, Ou J, McNulty JC, Zhu LJ, Celniker SE, Sinha S, Stormo GD, Brodsky MH, Wolfe SA. Enuameh MS, et al. Among authors: zhu c, zhu lj. Genome Res. 2013 Jun;23(6):928-40. doi: 10.1101/gr.151472.112. Epub 2013 Mar 7. Genome Res. 2013. PMID: 23471540 Free PMC article.
An improved predictive recognition model for Cys(2)-His(2) zinc finger proteins.
Gupta A, Christensen RG, Bell HA, Goodwin M, Patel RY, Pandey M, Enuameh MS, Rayla AL, Zhu C, Thibodeau-Beganny S, Brodsky MH, Joung JK, Wolfe SA, Stormo GD. Gupta A, et al. Among authors: zhu c. Nucleic Acids Res. 2014 Apr;42(8):4800-12. doi: 10.1093/nar/gku132. Epub 2014 Feb 12. Nucleic Acids Res. 2014. PMID: 24523353 Free PMC article.
FlyFactorSurvey: a database of Drosophila transcription factor binding specificities determined using the bacterial one-hybrid system.
Zhu LJ, Christensen RG, Kazemian M, Hull CJ, Enuameh MS, Basciotta MD, Brasefield JA, Zhu C, Asriyan Y, Lapointe DS, Sinha S, Wolfe SA, Brodsky MH. Zhu LJ, et al. Among authors: zhu c. Nucleic Acids Res. 2011 Jan;39(Database issue):D111-7. doi: 10.1093/nar/gkq858. Epub 2010 Nov 19. Nucleic Acids Res. 2011. PMID: 21097781 Free PMC article.
High-resolution DNA-binding specificity analysis of yeast transcription factors.
Zhu C, Byers KJ, McCord RP, Shi Z, Berger MF, Newburger DE, Saulrieta K, Smith Z, Shah MV, Radhakrishnan M, Philippakis AA, Hu Y, De Masi F, Pacek M, Rolfs A, Murthy T, Labaer J, Bulyk ML. Zhu C, et al. Genome Res. 2009 Apr;19(4):556-66. doi: 10.1101/gr.090233.108. Epub 2009 Jan 21. Genome Res. 2009. PMID: 19158363 Free PMC article.
Approaching a complete repository of sequence-verified protein-encoding clones for Saccharomyces cerevisiae.
Hu Y, Rolfs A, Bhullar B, Murthy TV, Zhu C, Berger MF, Camargo AA, Kelley F, McCarron S, Jepson D, Richardson A, Raphael J, Moreira D, Taycher E, Zuo D, Mohr S, Kane MF, Williamson J, Simpson A, Bulyk ML, Harlow E, Marsischky G, Kolodner RD, LaBaer J. Hu Y, et al. Among authors: zhu c. Genome Res. 2007 Apr;17(4):536-43. doi: 10.1101/gr.6037607. Epub 2007 Feb 23. Genome Res. 2007. PMID: 17322287 Free PMC article.
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