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Items: 14

1.

iDNAProt-ES: Identification of DNA-binding Proteins Using Evolutionary and Structural Features.

Chowdhury SY, Shatabda S, Dehzangi A.

Sci Rep. 2017 Nov 2;7(1):14938. doi: 10.1038/s41598-017-14945-1.

2.

Identification of DNA-binding proteins using multi-features fusion and binary firefly optimization algorithm.

Zhang J, Gao B, Chai H, Ma Z, Yang G.

BMC Bioinformatics. 2016 Aug 26;17(1):323. doi: 10.1186/s12859-016-1201-8.

3.

The wrapping loop and Rap1 C-terminal (RCT) domain of yeast Rap1 modulate access to different DNA binding modes.

Feldmann EA, De Bona P, Galletto R.

J Biol Chem. 2015 May 1;290(18):11455-66. doi: 10.1074/jbc.M115.637678. Epub 2015 Mar 24.

4.

The DNA-binding domain of yeast Rap1 interacts with double-stranded DNA in multiple binding modes.

Feldmann EA, Galletto R.

Biochemistry. 2014 Dec 9;53(48):7471-83. doi: 10.1021/bi501049b. Epub 2014 Nov 21.

5.

Sequence based prediction of DNA-binding proteins based on hybrid feature selection using random forest and Gaussian naïve Bayes.

Lou W, Wang X, Chen F, Chen Y, Jiang B, Zhang H.

PLoS One. 2014 Jan 24;9(1):e86703. doi: 10.1371/journal.pone.0086703. eCollection 2014.

6.

Rap1 relocalization contributes to the chromatin-mediated gene expression profile and pace of cell senescence.

Platt JM, Ryvkin P, Wanat JJ, Donahue G, Ricketts MD, Barrett SP, Waters HJ, Song S, Chavez A, Abdallah KO, Master SR, Wang LS, Johnson FB.

Genes Dev. 2013 Jun 15;27(12):1406-20. doi: 10.1101/gad.218776.113. Epub 2013 Jun 11.

7.

The orientation of the C-terminal domain of the Saccharomyces cerevisiae Rap1 protein is determined by its binding to DNA.

Matot B, Le Bihan YV, Lescasse R, Pérez J, Miron S, David G, Castaing B, Weber P, Raynal B, Zinn-Justin S, Gasparini S, Le Du MH.

Nucleic Acids Res. 2012 Apr;40(7):3197-207. doi: 10.1093/nar/gkr1166. Epub 2011 Dec 1.

8.

Boosting the prediction and understanding of DNA-binding domains from sequence.

Langlois RE, Lu H.

Nucleic Acids Res. 2010 Jun;38(10):3149-58. doi: 10.1093/nar/gkq061. Epub 2010 Feb 15.

9.

The transcriptional repressor activator protein Rap1p is a direct regulator of TATA-binding protein.

Bendjennat M, Weil PA.

J Biol Chem. 2008 Mar 28;283(13):8699-710. doi: 10.1074/jbc.M709436200. Epub 2008 Jan 14.

10.

Learning to translate sequence and structure to function: identifying DNA binding and membrane binding proteins.

Langlois RE, Carson MB, Bhardwaj N, Lu H.

Ann Biomed Eng. 2007 Jun;35(6):1043-52. Epub 2007 Apr 13.

11.

Large-scale exploration of growth inhibition caused by overexpression of genomic fragments in Saccharomyces cerevisiae.

Boyer J, Badis G, Fairhead C, Talla E, Hantraye F, Fabre E, Fischer G, Hennequin C, Koszul R, Lafontaine I, Ozier-Kalogeropoulos O, Ricchetti M, Richard GF, Thierry A, Dujon B.

Genome Biol. 2004;5(9):R72. Epub 2004 Aug 31.

12.
14.

DOT4 links silencing and cell growth in Saccharomyces cerevisiae.

Kahana A, Gottschling DE.

Mol Cell Biol. 1999 Oct;19(10):6608-20.

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