REB1/YBR049C Literature Guide Help

Other names published for REB1: GRF2, YBR049C

REB1 - Computational analysis (27)

ReferenceOther Genes Addressed
Hansen L, et al.  (2012) Differences in local genomic context of bound and unbound motifs. Gene 506(1):125-34
Contador CA, et al.  (2011) Identification of transcription factors perturbed by the synthesis of high levels of a foreign protein in yeast saccharomyces cerevisiae. Biotechnol Prog 27(4):925-36
Gordan R, et al.  (2011) Curated collection of yeast transcription factor DNA binding specificity data reveals novel structural and gene regulatory insights. Genome Biol 12(12):R125
Wang H, et al.  (2011) Yeast cell cycle transcription factors identification by variable selection criteria. Gene 485(2):172-6
Babbitt GA  (2010) Relaxed selection against accidental binding of transcription factors with conserved chromatin contexts. Gene 466(1-2):43-8
Goh WS, et al.  (2010) Blurring of high-resolution data shows that the effect of intrinsic nucleosome occupancy on transcription factor binding is mostly regional, not local. PLoS Comput Biol 6(1):e1000649
Hu J, et al.  (2010) Analysis of transcriptional synergy between upstream regions and introns in ribosomal protein genes of yeast. Comput Biol Chem 34(2):106-14
Tanaka Y, et al.  (2010) Positional variations among heterogeneous nucleosome maps give dynamical information on chromatin. Chromosoma 119(4):391-404
Jothi R, et al.  (2009) Genomic analysis reveals a tight link between transcription factor dynamics and regulatory network architecture. Mol Syst Biol 5:294
Li A and Tuck D  (2009) An effective tri-clustering algorithm combining expression data with gene regulation information. Gene Regul Syst Bio 3:49-64
Swamy KB, et al.  (2009) Impact of DNA-binding position variants on yeast gene expression. Nucleic Acids Res 37(21):6991-7001
Lu CC, et al.  (2008) Extracting transcription factor binding sites from unaligned gene sequences with statistical models. BMC Bioinformatics 9 Suppl 12:S7
Chen G, et al.  (2007) Clustering of genes into regulons using integrated modeling-COGRIM. Genome Biol 8(1):R4
Holloway DT, et al.  (2007) Machine learning for regulatory analysis and transcription factor target prediction in yeast. Syst Synth Biol 1(1):25-46
Morozov AV and Siggia ED  (2007) Connecting protein structure with predictions of regulatory sites. Proc Natl Acad Sci U S A 104(17):7068-73
Roider HG, et al.  (2007) Predicting transcription factor affinities to DNA from a biophysical model. Bioinformatics 23(2):134-41
Galbraith SJ, et al.  (2006) Transcriptome network component analysis with limited microarray data. Bioinformatics 22(15):1886-94
Shida K  (2006) GibbsST: a Gibbs sampling method for motif discovery with enhanced resistance to local optima. BMC Bioinformatics 7:486
Wu WS, et al.  (2006) Computational reconstruction of transcriptional regulatory modules of the yeast cell cycle. BMC Bioinformatics 7(1):421
Yu H and Gerstein M  (2006) Genomic analysis of the hierarchical structure of regulatory networks. Proc Natl Acad Sci U S A 103(40):14724-31
Bilu Y and Barkai N  (2005) The design of transcription-factor binding sites is affected by combinatorial regulation. Genome Biol 6(12):R103
Yu T and Li KC  (2005) Inference of transcriptional regulatory network by two-stage constrained space factor analysis. Bioinformatics 21(21):4033-8
Luscombe NM, et al.  (2004) Genomic analysis of regulatory network dynamics reveals large topological changes. Nature 431(7006):308-12
Middendorf M, et al.  (2004) Predicting genetic regulatory response using classification. Bioinformatics 20 Suppl 1():i232-40
Tanay A, et al.  (2004) A global view of the selection forces in the evolution of yeast cis-regulation. Genome Res 14(5):829-34
Tamada Y, et al.  (2003) Estimating gene networks from gene expression data by combining Bayesian network model with promoter element detection. Bioinformatics 19 Suppl 2:II227-II236
Hughes JD, et al.  (2000) Computational identification of cis-regulatory elements associated with groups of functionally related genes in Saccharomyces cerevisiae. J Mol Biol 296(5):1205-14