Table 2.
Selected GO biological processes enriched among downregulated proteins in NAT1 KO cells.a
| Category | Sub-category | GO term ID | GO term | P value | P FDR adj. |
|---|---|---|---|---|---|
| Mitochondria |
Electron Transport Chain (Complex V and III) |
GO:0046034 | ATP metabolic process | 1.11E-06 | 6.78E-05 |
| GO:0006754 | ATP biosynthetic process | 6.00E-10 | 7.09E-08 | ||
| GO:0042776 | mitochondrial ATP synthesis coupled proton transport | 0.00E + 00 | 1.90E-09 | ||
| GO:0006122 | mitochondrial electron transport, ubiquinol to cytochrome c | 8.69E-05 | 3.89E-03 | ||
| GO:0022900 | electron transport chain | 9.31E-04 | 2.64E-02 | ||
| Protein Synthesis (Mitochondrial Ribosome) | GO:0032543 | mitochondrial translation | 1.49E-07 | 1.07E-05 | |
| GO:0070126 | mitochondrial translational termination | 6.68E-06 | 3.64E-04 | ||
| GO:0070125 | mitochondrial translational elongation | 1.97E-07 | 1.36E-05 | ||
| GO:0070129 | regulation of mitochondrial translation | 1.17E-03 | 3.19E-02 | ||
| Membrane Organization | GO:0006839 | mitochondrial transport | 0.00E + 00 | 2.00E-10 | |
| GO:0007005 | mitochondrion organization | 2.00E-10 | 2.25E-08 | ||
| GO:0007006 | mitochondrial membrane organization | 0.00E + 00 | 4.20E-09 | ||
| GO:0070585 | protein localization to mitochondrion | 2.60E-04 | 9.48E-03 | ||
| GO:1990542 | mitochondrial transmembrane transport | 2.00E-10 | 2.32E-08 | ||
| GO:0070584 | mitochondrion morphogenesis | 5.00E-04 | 1.62E-02 | ||
| Ribosome & Ribonucleoprotein Complex | Ribosome Assembly | GO:0042254 | ribosome biogenesis | 3.32E-31 | 2.28E-28 |
| GO:0042273 | ribosomal large subunit biogenesis | 9.07E-16 | 0.00E + 00 | ||
| GO:0042255 | ribosome assembly | 9.36E-06 | 4.96E-04 | ||
| GO:0000054 | ribosomal subunit export from nucleus | 8.95E-04 | 2.56E-02 | ||
| rRNA Processing & Maturation | GO:0016072 | rRNA metabolic process | 7.78E-27 | 4.29E-24 | |
| GO:0006364 | rRNA processing | 6.13E-27 | 3.55E-24 | ||
| GO:0009303 | rRNA transcription | 1.84E-07 | 1.28E-05 | ||
| GO:0000469 | cleavage involved in rRNA processing | 5.91E-05 | 2.74E-03 | ||
| Ribonucleoprotein Complex | GO:0098781 | ncRNA transcription | 5.94E-05 | 2.74E-03 | |
| GO:0034470 | ncRNA processing | 1.24E-17 | 0.00E + 00 | ||
| GO:0071826 | ribonucleoprotein complex subunit organization | 0.00E + 00 | 3.60E-09 | ||
| GO:0022618 | ribonucleoprotein complex assembly | 0.00E + 00 | 3.60E-09 | ||
| GO:0022613 | ribonucleoprotein complex biogenesis | 5.08E-35 | 4.00E-32 | ||
| GO:0071426 | ribonucleoprotein complex export from nucleus | 0.00E + 00 | 1.00E-10 | ||
| Cell Cycle | GO:0007049 | cell cycle | 2.44E-08 | 2.05E-06 | |
| GO:0008283 | cell population proliferation | 1.50E-04 | 5.99E-03 | ||
| GO:0000075 | cell cycle checkpoint | 6.38E-04 | 1.93E-02 | ||
| GO:0044770 | cell cycle phase transition | 1.22E-04 | 5.25E-03 | ||
| GO:0044843 | cell cycle G1/S phase transition | 1.64E-04 | 6.43E-03 | ||
| GO:0006260 | DNA replication | 0.00E + 00 | 0.00E + 00 | ||
| DNA Damage Response | Checkpoints | GO:0031570 | DNA integrity checkpoint | 9.01E-04 | 2.57E-02 |
| GO:0044773 | mitotic DNA damage checkpoint | 2.62E-04 | 9.52E-03 | ||
| GO:0031571 | mitotic G1 DNA damage checkpoint | 1.04E-03 | 2.90E-02 | ||
| GO:0030330 | DNA damage response, signal transduction by p53 class mediator | 2.60E-04 | 9.48E-03 | ||
| GO:0072422 | signal transduction involved in DNA damage checkpoint | 5.18E-04 | 1.66E-02 | ||
| DNA Repair | GO:0006281 | DNA repair | 0.00E + 00 | 0.00E + 00 | |
| GO:0006302 | double-strand break repair | 1.26E-07 | 9.10E-06 | ||
| GO:0000724 | double-strand break repair via homologous recombination | 7.16E-07 | 4.55E-05 | ||
| GO:0006974 | cellular response to DNA damage stimulus | 0.00E + 00 | 0.00E + 00 | ||
| GO:0006303 | double-strand break repair via nonhomologous end joining | 1.08E-04 | 4.73E-03 |
a
Extended version of this table is available as Supplementary Table S7.