PHD1/YKL043W Literature Guide Help

Other names published for PHD1: YKL043W

PHD1 - Computational analysis (21)

ReferenceOther Genes Addressed
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
Hansen L, et al.  (2012) Differences in local genomic context of bound and unbound motifs. Gene 506(1):125-34
Ramazzotti M, et al.  (2012) A computational pipeline to discover highly phylogenetically informative genes in sequenced genomes: application to Saccharomyces cerevisiae natural strains. Nucleic Acids Res 40(9):3834-48
Spedale G, et al.  (2012) Tight cooperation between Mot1p and NC2beta in regulating genome-wide transcription, repression of transcription following heat shock induction and genetic interaction with SAGA. Nucleic Acids Res 40(3):996-1008
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
Dikicioglu D, et al.  (2011) How yeast re-programmes its transcriptional profile in response to different nutrient impulses. BMC Syst Biol 5(1):148
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
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
Chen T and Li F  (2009) Identifying cell cycle regulators and combinatorial interactions among transcription factors with microarray data and ChIP-chip data. Int J Bioinform Res Appl 5(6):625-46
Emmert-Streib F and Dehmer M  (2009) Information processing in the transcriptional regulatory network of yeast: fnctional robustness. BMC Syst Biol 3:35
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
Wang Y, et al.  (2009) Predicting eukaryotic transcriptional cooperativity by Bayesian network integration of genome-wide data. Nucleic Acids Res 37(18):5943-58
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
Janga SC, et al.  (2008) Transcriptional regulation constrains the organization of genes on eukaryotic chromosomes. Proc Natl Acad Sci U S A 105(41):15761-6
Managbanag JR, et al.  (2008) Shortest-Path Network Analysis Is a Useful Approach toward Indentifying Genetic Determinants of Longevity. PLoS ONE 3(11):e3802
Nyswaner KM, et al.  (2008) Chromatin-associated genes protect the yeast genome from ty1 insertional mutagenesis. Genetics 178(1):197-214
Sun W, et al.  (2007) Detection of eQTL modules mediated by activity levels of transcription factors. Bioinformatics 23(17):2290-7
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
Luscombe NM, et al.  (2004) Genomic analysis of regulatory network dynamics reveals large topological changes. Nature 431(7006):308-12