HAP4/YKL109W Literature Guide Help

Other names published for HAP4: YKL109W

HAP4 - Computational analysis (40)

Results: 1 - 30 of 40 records
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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
Kitanovic A, et al.  (2012) Acetic acid treatment in S. cerevisiae creates significant energy deficiency and nutrient starvation that is dependent on the activity of the mitochondrial transcriptional complex Hap2-3-4-5. Front Oncol 2():118
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
Aburatani S  (2011) Application of structure equation modeling for inferring a serial transcriptional regulation in yeast. Gene Regul Syst Bio 5():75-88
Rao AR and Pellegrini M  (2011) Regulation of the yeast metabolic cycle by transcription factors with periodic activities. BMC Syst Biol 5(1):160
Sharma PK, et al.  (2011) Calorie restriction up-regulates iron and copper transport genes in Saccharomyces cerevisiae. Mol Biosyst 7(2):394-402
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
Lee E and Bussemaker HJ  (2010) Identifying the genetic determinants of transcription factor activity. Mol Syst Biol 6():412
Morris RT, et al.  (2010) Ceres: software for the integrated analysis of transcription factor binding sites and nucleosome positions in Saccharomyces cerevisiae. Bioinformatics 26(2):168-74
Wu C, et al.  (2010) Composite functional module inference: detecting cooperation between transcriptional regulation and protein interaction by mantel test. BMC Syst Biol 4():82
Zeng T and Li J  (2010) Maximization of negative correlations in time-course gene expression data for enhancing understanding of molecular pathways. Nucleic Acids Res 38(1):e1
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
Litvin O, et al.  (2009) Modularity and interactions in the genetics of gene expression. Proc Natl Acad Sci U S A 106(16):6441-6
Mak HC, et al.  (2009) Dynamic reprogramming of transcription factors to and from the subtelomere. Genome Res 19(6):1014-25
Michoel T, et al.  (2009) Comparative analysis of module-based versus direct methods for reverse-engineering transcriptional regulatory networks. BMC Syst Biol 3:49
Selpi S, et al.  (2009) Predicting functional upstream open reading frames in Saccharomyces cerevisiae. BMC Bioinformatics 10():451
Swamy KB, et al.  (2009) Impact of DNA-binding position variants on yeast gene expression. Nucleic Acids Res 37(21):6991-7001
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
Lu CC, et al.  (2008) Extracting transcription factor binding sites from unaligned gene sequences with statistical models. BMC Bioinformatics 9 Suppl 12:S7
Ward LD and Bussemaker HJ  (2008) Predicting functional transcription factor binding through alignment-free and affinity-based analysis of orthologous promoter sequences. Bioinformatics 24(13):i165-71
Chen G, et al.  (2007) Clustering of genes into regulons using integrated modeling-COGRIM. Genome Biol 8(1):R4
Cvijovic M, et al.  (2007) Identification of putative regulatory upstream ORFs in the yeast genome using heuristics and evolutionary conservation. BMC Bioinformatics 8:295
Knijnenburg TA, et al.  (2007) Exploiting combinatorial cultivation conditions to infer transcriptional regulation. BMC Genomics 8:25
Reddy TE, et al.  (2007) Positional clustering improves computational binding site detection and identifies novel cis-regulatory sites in mammalian GABAA receptor subunit genes. Nucleic Acids Res 35(3):e20
Sun W, et al.  (2007) Detection of eQTL modules mediated by activity levels of transcription factors. Bioinformatics 23(17):2290-7
Yuan S and Li KC  (2007) Context-dependent clustering for dynamic cellular state modeling of microarray gene expression. Bioinformatics 23(22):3039-47
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
Results: 1 - 30 of 40 records
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