Table 4. Downregulated Sense Transcripts (700).
| N | LOD | P | P_adj | attrib ID | attrib name |
|---|---|---|---|---|---|
| 5 | 1.84052114 | 1.93E-06 | 0.026 | GO:0004169 | Dolichyl-phosphate-mannose-protein mannosyltransferase activity |
| 18 | 0.711054338 | 1.45E-06 | 0.02 | GO:0030561 | RNA 2’-O-ribose methylation guide activity |
| 18 | 0.711054338 | 1.45E-06 | 0.02 | GO:0030562 | rRNA 2’-O-ribose methylation guide activity |
| 20 | 0.693317905 | 6.13E-07 | 0.006 | GO:0031167 | rRNA methylation |
| 21 | 0.685997034 | 3.97E-07 | 0.005 | GO:0031428 | Box C/D snoRNP complex |
| 29 | 0.673647597 | 4.46E-09 | 0 | GO:0000944 | Base pairing with rRNA |
| 28 | 0.667960766 | 1.00E-08 | 0 | GO:0030555 | RNA modification guide activity |
| 28 | 0.667960766 | 1.00E-08 | 0 | GO:0030556 | rRNA modification guide activity |
| 31 | 0.606510897 | 2.03E-08 | 0 | GO:0000154 | rRNA modification |
| 40 | 0.563435455 | 1.89E-09 | 0 | GO:0000496 | Base pairing |
| 39 | 0.551890352 | 5.25E-09 | 0 | GO:0000498 | Base pairing with RNA |
| 39 | 0.535516237 | 1.17E-08 | 0 | GO:0019843 | rRNA binding |
| 34 | 0.530391432 | 1.18E-07 | 0.002 | GO:0005732 | Small nucleolar ribonucleoprotein complex |
| 58 | 0.364279682 | 3.87E-07 | 0.005 | GO:0006520 | Cellular amino acid metabolic process |
| 60 | 0.351442841 | 5.69E-07 | 0.006 | GO:0044106 | Cellular amine metabolic process |
| 62 | 0.346800579 | 4.52E-07 | 0.006 | GO:0006412 | Translation |
| 63 | 0.321570613 | 2.12E-06 | 0.028 | GO:0009308 | Amine metabolic process |
| 77 | 0.313115978 | 3.93E-07 | 0.005 | GO:0044283 | Small molecule biosynthetic process |
Transcripts linked to ribosome biosynthesis, primarily corresponding to small nucleolar RNAs, are downregulated in dbp2∆ cells. Genes with sense transcripts that were significantly underrepresented in dbp2∆ cells as compared to wild type were selected from the RNA sequencing data set. GO term analysis was conducted using FuncAssociate 2.0 as above. The columns are as follows: N, no. of entries in the category; LOD, Log10 of the odds ratio; P, one-sided P-value of the association of attribute and query; P_adj, adjusted P-value as a fraction of 1000 null-hypothesis simulations; attrib ID, GO term 8 identification number for attribution category; attrib name, category name for functional processes. There was no enrichment of GO terms for downregulated antisense transcripts in DBP2-deficient cells.