2014
Genome-Wide Characterization of Light-Regulated Genes in Neurospora crassa
Wu C, Yang F, Smith KM, Peterson M, Dekhang R, Zhang Y, Zucker J, Bredeweg EL, Mallappa C, Zhou X, Lyubetskaya A, Townsend JP, Galagan JE, Freitag M, Dunlap JC, Bell-Pedersen D, Sachs MS. Genome-Wide Characterization of Light-Regulated Genes in Neurospora crassa. G3: Genes, Genomes, Genetics 2014, 4: 1731-1745. PMID: 25053707, PMCID: PMC4169166, DOI: 10.1534/g3.114.012617.Peer-Reviewed Original ResearchConceptsNeurospora crassaRNA-seqFilamentous fungus Neurospora crassaGenome-wide characterizationProtein coding genesFungus Neurospora crassaPrevious microarray studyRibosome biogenesisCoding genesTranscriptional responseRRNA metabolismCellular metabolismMicroarray studiesGenesCrassaSignificant oxidative stressRNA levelsOrganismsMRNA levelsOxidative stressMRNAMetabolismBiogenesisTranscriptsMycelium
2002
Bayesian analysis of gene expression levels: statistical quantification of relative mRNA level across multiple strains or treatments
Townsend JP, Hartl DL. Bayesian analysis of gene expression levels: statistical quantification of relative mRNA level across multiple strains or treatments. Genome Biology 2002, 3: research0071.1. PMID: 12537560, PMCID: PMC151173, DOI: 10.1186/gb-2002-3-12-research0071.Peer-Reviewed Original ResearchMeSH KeywordsBayes TheoremDNA-Binding ProteinsEthanolGene DeletionGene Expression ProfilingGene Expression Regulation, FungalGenotypeModels, GeneticNuclear ProteinsOligonucleotide Array Sequence AnalysisRNA, FungalRNA, MessengerSaccharomyces cerevisiae ProteinsSpecies SpecificityTranscription FactorsZincConceptsGene of interestExpression levelsGene expression levelsTwofold thresholdGene basisTranscriptional responseMicroarray comparisonsMinimal mediumExpression differencesBiological insightsMicroarray analysisEthanol shockMicroarray dataRelative mRNA levelsGenesMRNA levelsMultiple strainsBayesian analysisDevelopmental state