TABLE 1.
Conserved genes showing Vad1 binding by RNA Immunoprecipitation
A partial list of target genes after deletion of hypothetical genes is given. A complete list is provided in supplemental Table S2.
| Locus | Name | GO terms (function, process, component) | S.D. abovea | p valueb |
|---|---|---|---|---|
| CND05750 | Pheromone α | 18.4 | 0 | |
| CNE00990 | Ubiquinone biosynthesis-related protein putative | Ubiquinone biosynthetic process (GO term accession no. 6744), mitochondrion (5739) | 16.7 | 0 |
| CND05690 | MFα3 | 12.2 | 0 | |
| CNF03500 | Cell wall organization and biogenesis-related protein putative | Cell wall organization (7047), cytoplasm (5737), nucleus (5634) | 12.0 | 0 |
| CND00920 | Mitochondrion protein putative | Mitochondrion (5739) | 9.9 | 0 |
| CND03890 | Asparagine-tRNA ligase putative | Asparagine-tRNA ligase activity (4816), translation (6412), mitochondrion (5739) | 8.1 | 0 |
| CNA05980 | Cytoplasm protein putative | Cytoplasm (5737) | 7.8 | 4.108E-15 |
| CNE04100 | Cyclin-dependent protein kinase regulator putative | Cyclin-dependent protein kinase regulator activity (16538), general RNA polymerase II transcription factor activity (16251), meiosis (7126), negative regulation of transcription from RNA polymerase II promoter (122), transcription factor complex (5667) | 6.3 | 1.243E-10 |
| CNA05980 | Cytoplasm protein putative | Cytoplasm (5737) | 6.3 | 1.254E-10 |
| CNN02220 | Epoxide hydrolase 1 (EC 3.3.2.3) putative | 6.1 | 4.843E-10 | |
| CNI01880 | ATP-dependent RNA helicase putative | RNA helicase activity (3724), mRNA export from nucleus (6406), cytoplasm (5737), nuclear pore (5643) | 5.2 | 8.812E-08 |
| CNF04720 | Pim1 protein (poly(a)+ RNA transport protein 2) putative | Signal transducer activity (4871), rRNA export from nucleus (6407), ribosome export from nucleus (54), nucleus (5634) | 4.0 | 3.442E-05 |
| CNL05600 | Pyruvate dehydrogenase e1 component β subunit mitochondrial precursor (EC 1.2.4.1) putative | Pyruvate dehydrogenase (acetyl-transferring) activity (4739), pyruvate metabolic process (6090), mitochondrial pyruvate dehydrogenase complex (5967), mitochondrion (5739) | 3.7 | 9.499E-05 |
a S.D. above indicates the number of S.D. values (based on four microarray analyses) that the indicated gene signal was above the background signal, the latter defined as the mean level of signal of all genes in the immunoprecipitated RNA sample.
b p values were corrected for false discovery rate using the Benjamini-Hochberg method.