TABLE 1

Genes whose mRNA levels changed in the tDNA delete strain compared to the wild type and statistical analysis of the differences in expression levels

GeneQ valueBeta statisticGene product function
Likelihood ratio testWald test
Upregulated
    YCR061w0.0420038573.22E−110.6580998Protein of unknown function
    YDL124w0.0420038576.31E−140.4395261NADPH-dependent alpha-keto amide reductase
    YHR214c-B0.0056721822.35E−2102.5870238Retrotransposon TYA Gag and TYB Pol genes
    YNL160w0.0402720922.69E−200.5348964 YGP1Cell wall-related secretory glycoprotein
    YOR201c0.0203963479.18E−270.7685378 MRM1Ribose methyltransferase
    YOR202w0.0091171451.20E−763.7326308 HIS3Imidazoleglycerol-phosphate dehydratase
    YPL240c0.0420038571.20E−150.5188043 HSP82Hsp90 chaperone
Downregulated
    YBR068c0.0309662431.53E−20−0.5156825 BAP2High-affinity leucine permease
    YBR296c0.0398946211.87E−19−0.5692597 PHO89Plasma membrane Na+/Pi cotransporter
    YCR008w0.0156624636.48E−43−1.1217 SAT4Ser/Thr protein kinase involved in salt tolerance
    YER073w0.0451979718.81E−16−0.5691673 ALD5Mitochondrial aldehyde dehydrogenase
    YER091c0.0420038571.79E−20−0.5345605 MET6Cobalamin-independent methionine synthase
    YGL009c0.0091171451.47E−82−2.0202761 LEU1Isopropylmalate isomerase
    YHR208w0.0077768917.72E−106−1.3235331 BAT1Mitochondrial branched-chain amino acid aminotransferase
    YJR010w0.0420038573.34E−13−0.8073784 MET3ATP sulfurylase involved in methionine metabolism
    YJR016c0.0177368783.09E−29−0.5823368 ILV3Dihydroxy acid dehydratase involved in biosynthesis of branched-chain amino acids
    YKL030w0.0420038573.46E−11−0.6718075Dubious open reading frame
    YKL120w0.0077768911.47E−94−1.4546702 OAC1Mitochondrial inner membrane transporter
    YLR355c0.0420038572.35E−12−0.387429 ILV5Acetohydroxy acid reductoisomerase involved in biosynthesis of branched-chain amino acids
    YMR108w0.0420038573.72E−15−0.4213145 ILV2Acetolactate synthase involved in isoleucine and valine biosynthesis
    YOR271c0.0275350844.63E−26−0.5903308 FSF1Putative protein of the sideroblastic-associated protein family