From: Impact of RNA degradation on gene expression profiling
Under-represented Genes | ||||||||||
---|---|---|---|---|---|---|---|---|---|---|
Ontology | Rank | GO.ID | Term | Annotated | Significant | Expected | Rank in classic | classic | elim | weight |
BP | 1 | GO:0006099 | tricarboxylic acid cycle | 41 | 6 | 0.23 | 1 | 9.7e-08 | 9.7e-08 | 9.7e-08 |
2 | GO:0045900 | negative regulation of translational elongation | 6 | 3 | 0.03 | 10 | 3.3e-06 | 3.3e-06 | 3.3e-06 | |
3 | GO:0046500 | S-adenosylmethionine metabolic process | 7 | 3 | 0.04 | 12 | 5.7e-06 | 5.7e-06 | 5.7e-06 | |
4 | GO:0006446 | regulation of translational initiation | 70 | 5 | 0.39 | 19 | 4.3e-05 | 4.3e-05 | 4.3e-05 | |
5 | GO:0006614 | SRP-dependent cotranslational protein targeting to membrane | 13 | 3 | 0.07 | 20 | 4.5e-05 | 4.5e-05 | 4.5e-05 | |
6 | GO:0007021 | tubulin complex assembly | 5 | 2 | 0.03 | 31 | 0.00030 | 0.00030 | 0.00030 | |
7 | GO:0046498 | S-adenosylhomocysteine metabolic process | 5 | 2 | 0.03 | 32 | 0.00030 | 0.00030 | 0.00030 | |
8 | GO:0030091 | protein repair | 6 | 2 | 0.03 | 33 | 0.00045 | 0.00045 | 0.00045 | |
9 | GO:0006425 | glutaminyl-tRNA aminoacylation | 1 | 1 | 0.01 | 51 | 0.00554 | 0.00554 | 0.00554 | |
10 | GO:0006430 | lysyl-tRNA aminoacylation | 1 | 1 | 0.01 | 52 | 0.00554 | 0.00554 | 0.00554 | |
11 | GO:0043393 | regulation of protein binding | 25 | 2 | 0.14 | 54 | 0.00839 | 0.00839 | 0.00839 | |
MF | 1 | GO:0000104 | succinate dehydrogenase activity | 8 | 5 | 0.04 | 1 | 2.4e-10 | 2.4e-10 | 2.4e-10 |
2 | GO:0005047 | signal recognition particle binding | 7 | 3 | 0.04 | 3 | 5.4e-06 | 5.4e-06 | 5.4e-06 | |
3 | GO:0045182 | translation regulator activity | 211 | 8 | 1.15 | 4 | 2.1e-05 | 0.27124 | 2.1e-05 | |
4 | GO:0008312 | 7 S RNA binding | 14 | 3 | 0.08 | 5 | 5.5e-05 | 5.5e-05 | 5.5e-05 | |
5 | GO:0008119 | thiopurine S-methyltransferase activity | 3 | 2 | 0.02 | 7 | 8.8e-05 | 8.8e-05 | 8.8e-05 | |
6 | GO:0003924 | GTPase activity | 328 | 8 | 1.79 | 8 | 0.00044 | 0.00044 | 0.00044 | |
7 | GO:0004719 | protein-L-isoaspartate (D-aspartate) O-methyltransferase activity | 10 | 2 | 0.05 | 16 | 0.00129 | 0.00129 | 0.00129 | |
8 | GO:0005525 | GTP binding | 592 | 10 | 3.22 | 19 | 0.00150 | 0.00150 | 0.00150 | |
9 | GO:0009055 | electron carrier activity | 349 | 7 | 1.90 | 22 | 0.00304 | 0.00304 | 0.00304 | |
10 | GO:0004819 | glutamine-tRNA ligase activity | 1 | 1 | 0.01 | 26 | 0.00544 | 0.00544 | 0.00544 | |
11 | GO:0004824 | lysine-tRNA ligase activity | 1 | 1 | 0.01 | 27 | 0.00544 | 0.00544 | 0.00544 | |
12 | GO:0003723 | RNA binding | 1269 | 17 | 6.91 | 10 | 0.00052 | 0.00680 | 0.00680 | |
CC | 1 | GO:0005786 | signal recognition particle, endoplasmic reticulum targeting | 15 | 4 | 0.08 | 3 | 1.2e-06 | 1.2e-06 | 1.2e-06 |
2 | GO:0005785 | signal recognition particle receptor complex | 7 | 3 | 0.04 | 5 | 6.0e-06 | 6.0e-06 | 6.0e-06 | |
3 | GO:0005853 | eukaryotic translation elongation factor 1 complex | 17 | 3 | 0.10 | 11 | 0.00011 | 0.00011 | 0.00011 | |
4 | GO:0002079 | inner acrosomal membrane | 4 | 2 | 0.02 | 13 | 0.00019 | 0.00019 | 0.00019 | |
5 | GO:0042589 | zymogen granule membrane | 5 | 2 | 0.03 | 16 | 0.00031 | 0.00031 | 0.00031 | |
6 | GO:0008290 | F-actin capping protein complex | 7 | 2 | 0.04 | 24 | 0.00065 | 0.00065 | 0.00065 | |
7 | GO:0005743 | mitochondrial inner membrane | 391 | 11 | 2.20 | 6 | 1.3e-05 | 1.3e-05 | 0.00263 | |
8 | GO:0044444 | cytoplasmic part | 6340 | 68 | 35.62 | 1 | 1.5e-09 | 0.01111 | 0.00499 | |
9 | GO:0045273 | respiratory chain complex II | 3 | 2 | 0.02 | 10 | 9.4e-05 | 9.4e-05 | 0.00558 | |
10 | GO:0005759 | mitochondrial matrix | 295 | 6 | 1.66 | 30 | 0.00652 | 0.00652 | 0.00652 | |
Over-represented Genes | ||||||||||
Ontology | Rank | GO.ID | Term | Annotated | Significant | Expected | Rank in classic | classic | elim | weight |
BP | 1 | GO:0018279 | protein amino acid N-linked glycosylation via asparagine | 20 | 2 | 0.02 | 1 | 0.00013 | 0.00013 | 0.00013 |
2 | GO:0006414 | translational elongation | 253 | 3 | 0.22 | 3 | 0.00127 | 0.00127 | 0.00127 | |
3 | GO:0000722 | telomere maintenance via recombination | 2 | 1 | 0.00 | 5 | 0.00173 | 0.00173 | 0.00173 | |
4 | GO:0009446 | putrescine biosynthetic process | 2 | 1 | 0.00 | 6 | 0.00173 | 0.00173 | 0.00173 | |
5 | GO:0051258 | protein polymerization | 106 | 2 | 0.09 | 8 | 0.00374 | 0.00374 | 0.00374 | |
6 | GO:0008295 | spermidine biosynthetic process | 6 | 1 | 0.01 | 9 | 0.00519 | 0.00519 | 0.00519 | |
7 | GO:0007094 | mitotic cell cycle spindle assembly checkpoint | 8 | 1 | 0.01 | 11 | 0.00691 | 0.00691 | 0.00691 | |
8 | GO:0007018 | microtubule-based movement | 157 | 2 | 0.14 | 13 | 0.00802 | 0.00802 | 0.00802 | |
9 | GO:0015937 | coenzyme A biosynthetic process | 10 | 1 | 0.01 | 15 | 0.00863 | 0.00863 | 0.00863 | |
MF | 1 | GO:0004579 | dolichyl-diphosphooligosaccharide-protein glycotransferase activity | 19 | 2 | 0.02 | 1 | 0.00014 | 0.00014 | 0.00014 |
2 | GO:0008783 | agmatinase activity | 2 | 1 | 0.00 | 3 | 0.00187 | 0.00187 | 0.00187 | |
3 | GO:0005198 | structural molecule activity | 1149 | 5 | 1.08 | 4 | 0.00359 | 0.13592 | 0.00359 | |
4 | GO:0004594 | pantothenate kinase activity | 7 | 1 | 0.01 | 6 | 0.00654 | 0.00654 | 0.00654 | |
5 | GO:0003720 | telomerase activity | 8 | 1 | 0.01 | 7 | 0.00747 | 0.00747 | 0.00747 | |
CC | 1 | GO:0008250 | oligosaccharyl transferase complex | 20 | 2 | 0.02 | 1 | 0.00013 | 0.00013 | 0.00013 |
2 | GO:0005840 | ribosome | 407 | 3 | 0.35 | 13 | 0.00493 | 0.00493 | 0.00493 |