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
| Gene |
Q value |
Beta statistic | Gene product function | |
|---|---|---|---|---|
| Likelihood ratio test | Wald test | |||
| Upregulated | ||||
| YCR061w | 0.042003857 | 3.22E−11 | 0.6580998 | Protein of unknown function |
| YDL124w | 0.042003857 | 6.31E−14 | 0.4395261 | NADPH-dependent alpha-keto amide reductase |
| YHR214c-B | 0.005672182 | 2.35E−210 | 2.5870238 | Retrotransposon TYA Gag and TYB Pol genes |
| YNL160w | 0.040272092 | 2.69E−20 | 0.5348964 YGP1 | Cell wall-related secretory glycoprotein |
| YOR201c | 0.020396347 | 9.18E−27 | 0.7685378 MRM1 | Ribose methyltransferase |
| YOR202w | 0.009117145 | 1.20E−76 | 3.7326308 HIS3 | Imidazoleglycerol-phosphate dehydratase |
| YPL240c | 0.042003857 | 1.20E−15 | 0.5188043 HSP82 | Hsp90 chaperone |
| Downregulated | ||||
| YBR068c | 0.030966243 | 1.53E−20 | −0.5156825 BAP2 | High-affinity leucine permease |
| YBR296c | 0.039894621 | 1.87E−19 | −0.5692597 PHO89 | Plasma membrane Na+/Pi cotransporter |
| YCR008w | 0.015662463 | 6.48E−43 | −1.1217 SAT4 | Ser/Thr protein kinase involved in salt tolerance |
| YER073w | 0.045197971 | 8.81E−16 | −0.5691673 ALD5 | Mitochondrial aldehyde dehydrogenase |
| YER091c | 0.042003857 | 1.79E−20 | −0.5345605 MET6 | Cobalamin-independent methionine synthase |
| YGL009c | 0.009117145 | 1.47E−82 | −2.0202761 LEU1 | Isopropylmalate isomerase |
| YHR208w | 0.007776891 | 7.72E−106 | −1.3235331 BAT1 | Mitochondrial branched-chain amino acid aminotransferase |
| YJR010w | 0.042003857 | 3.34E−13 | −0.8073784 MET3 | ATP sulfurylase involved in methionine metabolism |
| YJR016c | 0.017736878 | 3.09E−29 | −0.5823368 ILV3 | Dihydroxy acid dehydratase involved in biosynthesis of branched-chain amino acids |
| YKL030w | 0.042003857 | 3.46E−11 | −0.6718075 | Dubious open reading frame |
| YKL120w | 0.007776891 | 1.47E−94 | −1.4546702 OAC1 | Mitochondrial inner membrane transporter |
| YLR355c | 0.042003857 | 2.35E−12 | −0.387429 ILV5 | Acetohydroxy acid reductoisomerase involved in biosynthesis of branched-chain amino acids |
| YMR108w | 0.042003857 | 3.72E−15 | −0.4213145 ILV2 | Acetolactate synthase involved in isoleucine and valine biosynthesis |
| YOR271c | 0.027535084 | 4.63E−26 | −0.5903308 FSF1 | Putative protein of the sideroblastic-associated protein family |