ROX1/YPR065W Literature Guide Help

Other names published for ROX1: REO1, YPR065W

ROX1 - Computational analysis (25)

ReferenceOther Genes Addressed
Gitter A, et al.  (2013) Linking the signaling cascades and dynamic regulatory networks controlling stress responses. Genome Res 23(2):365-76
Charoensawan V, et al.  (2012) DNA sequence preferences of transcriptional activators correlate more strongly than repressors with nucleosomes. Mol Cell 47(2):183-92
Geijer C, et al.  (2012) Time course gene expression profiling of yeast spore germination reveals a network of transcription factors orchestrating the global response. BMC Genomics 13(1):554
Achcar F, et al.  (2011) A Boolean probabilistic model of metabolic adaptation to oxygen in relation to iron homeostasis and oxidative stress. BMC Syst Biol 5(1):51
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
Erb I and van Nimwegen E  (2011) Transcription factor binding site positioning in yeast: proximal promoter motifs characterize tata-less promoters. PLoS One 6(9):e24279
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
Swamy KB, et al.  (2011) Evidence of association between Nucleosome Occupancy and the Evolution of Transcription Factor Binding Sites in Yeast. BMC Evol Biol 11(1):150
Babbitt GA  (2010) Relaxed selection against accidental binding of transcription factors with conserved chromatin contexts. Gene 466(1-2):43-8
Joshi A, et al.  (2010) Characterizing regulatory path motifs in integrated networks using perturbational data. Genome Biol 11(3):R32
Jothi R, et al.  (2009) Genomic analysis reveals a tight link between transcription factor dynamics and regulatory network architecture. Mol Syst Biol 5:294
Mak HC, et al.  (2009) Dynamic reprogramming of transcription factors to and from the subtelomere. Genome Res 19(6):1014-25
Boorsma A, et al.  (2008) Inferring Condition-Specific Modulation of Transcription Factor Activity in Yeast through Regulon-Based Analysis of Genomewide Expression. PLoS ONE 3(9):e3112
Kundaje A, et al.  (2008) A predictive model of the oxygen and heme regulatory network in yeast. PLoS Comput Biol 4(11):e1000224
Wu WS and Li WH  (2008) Identifying gene regulatory modules of heat shock response in yeast. BMC Genomics 9:439
Chen G, et al.  (2007) Clustering of genes into regulons using integrated modeling-COGRIM. Genome Biol 8(1):R4
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
Sun W, et al.  (2007) Detection of eQTL modules mediated by activity levels of transcription factors. Bioinformatics 23(17):2290-7
Chua G, et al.  (2006) Identifying transcription factor functions and targets by phenotypic activation. Proc Natl Acad Sci U S A 103(32):12045-50
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
Siddharthan R, et al.  (2005) PhyloGibbs: a Gibbs sampling motif finder that incorporates phylogeny. PLoS Comput Biol 1(7):e67
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
Conlon EM, et al.  (2003) Integrating regulatory motif discovery and genome-wide expression analysis. Proc Natl Acad Sci U S A 100(6):3339-44
Guelzim N, et al.  (2002) Topological and causal structure of the yeast transcriptional regulatory network. Nat Genet 31(1):60-3