MCL coexpression mm9:101
From FANTOM5_SSTAR
Phase1 CAGE Peaks
Enriched pathways on this co-expression cluster<b>Summary:</b><br>Canonical pathway gene sets were compiled from Reactome, Wikipathways and KEGG. For the major signaling pathways, the transcriptionally-regulated genes (downstream targets) were obtained from Netpath. Combined, the canonical pathways and downstream targets totaled 489 human gene sets. The corresponding M. musculus gene sets were inferred by homology using the HomoloGene database. Enrichment for each of the canonical 489 pathways and gene sets included in the co-expression cluster was assessed by the hypergeometric probability. The resulting P values were also then adjusted by the Benjamini-Hochberg method for multiple comparisons.<br><b>Analyst: </b>Emmanuel Dimont<br><br>link to source dataset<br>data
| GO ID | GO name | FDR corrected p-value |
|---|---|---|
| GO:0005634 | nucleus | 7.74805566075103e-20 |
| GO:0042254 | ribosome biogenesis and assembly | 5.93289693199556e-15 |
| GO:0005730 | nucleolus | 1.57386287719075e-14 |
| GO:0006396 | RNA processing | 2.33904421642303e-14 |
| GO:0022613 | ribonucleoprotein complex biogenesis and assembly | 6.2042351110841e-14 |
| GO:0016072 | rRNA metabolic process | 7.07247633167291e-14 |
| GO:0006364 | rRNA processing | 7.07247633167291e-14 |
| GO:0003723 | RNA binding | 4.01627328864385e-11 |
| GO:0043231 | intracellular membrane-bound organelle | 5.15908546052382e-09 |
| GO:0043227 | membrane-bound organelle | 5.15908546052382e-09 |
| GO:0044428 | nuclear part | 5.15908546052382e-09 |
| GO:0006996 | organelle organization and biogenesis | 6.61117198950514e-09 |
| GO:0006399 | tRNA metabolic process | 4.23404797364489e-08 |
| GO:0010467 | gene expression | 7.3153160299453e-08 |
| GO:0000166 | nucleotide binding | 8.83229883253741e-08 |
| GO:0043229 | intracellular organelle | 1.37027571336237e-07 |
| GO:0043226 | organelle | 1.37027571336237e-07 |
| GO:0008033 | tRNA processing | 1.64667372583702e-07 |
| GO:0031981 | nuclear lumen | 2.45401847950981e-07 |
| GO:0016070 | RNA metabolic process | 8.10917019599275e-07 |
| GO:0043233 | organelle lumen | 1.18409422944702e-06 |
| GO:0031974 | membrane-enclosed lumen | 1.18409422944702e-06 |
| GO:0006139 | nucleobase, nucleoside, nucleotide and nucleic acid metabolic process | 1.5474653296646e-06 |
| GO:0044424 | intracellular part | 1.57948459948422e-06 |
| GO:0005622 | intracellular | 2.58253931346923e-06 |
| GO:0003676 | nucleic acid binding | 2.79550479654412e-06 |
| GO:0016043 | cellular component organization and biogenesis | 1.18321325726083e-05 |
| GO:0004386 | helicase activity | 3.52332013460851e-05 |
| GO:0004730 | pseudouridylate synthase activity | 8.07151284632236e-05 |
| GO:0030529 | ribonucleoprotein complex | 0.00011917114844179 |
| GO:0017076 | purine nucleotide binding | 0.000135352089292831 |
| GO:0032553 | ribonucleotide binding | 0.000294054228077952 |
| GO:0032555 | purine ribonucleotide binding | 0.000294054228077952 |
| GO:0044446 | intracellular organelle part | 0.000647546486389189 |
| GO:0043021 | ribonucleoprotein binding | 0.000647546486389189 |
| GO:0044422 | organelle part | 0.000667666507104959 |
| GO:0005643 | nuclear pore | 0.00112833604595401 |
| GO:0030519 | snoRNP binding | 0.00139197337308636 |
| GO:0030554 | adenyl nucleotide binding | 0.00140435158587496 |
| GO:0046930 | pore complex | 0.00148664023757025 |
| GO:0044453 | nuclear membrane part | 0.00202975857689722 |
| GO:0032040 | small subunit processome | 0.00207668587346777 |
| GO:0031119 | tRNA pseudouridine synthesis | 0.00207668587346777 |
| GO:0031965 | nuclear membrane | 0.00216192637867521 |
| GO:0005524 | ATP binding | 0.00230057620652168 |
| GO:0032559 | adenyl ribonucleotide binding | 0.00273439221417802 |
| GO:0006400 | tRNA modification | 0.0039324476067269 |
| GO:0008026 | ATP-dependent helicase activity | 0.00490351601515433 |
| GO:0001522 | pseudouridine synthesis | 0.00645987841891731 |
| GO:0016853 | isomerase activity | 0.00649485846505774 |
| GO:0016829 | lyase activity | 0.00649485846505774 |
| GO:0043232 | intracellular non-membrane-bound organelle | 0.00660711670388541 |
| GO:0043228 | non-membrane-bound organelle | 0.00660711670388541 |
| GO:0008168 | methyltransferase activity | 0.00714029052142233 |
| GO:0006913 | nucleocytoplasmic transport | 0.00735515182542594 |
| GO:0016741 | transferase activity, transferring one-carbon groups | 0.0074184022289869 |
| GO:0051169 | nuclear transport | 0.0074184022289869 |
| GO:0043170 | macromolecule metabolic process | 0.0079935994478548 |
| GO:0008175 | tRNA methyltransferase activity | 0.00832152700759631 |
| GO:0043624 | cellular protein complex disassembly | 0.00980598753096415 |
| GO:0016836 | hydro-lyase activity | 0.0111724731988155 |
| GO:0043241 | protein complex disassembly | 0.0112177597219261 |
| GO:0005635 | nuclear envelope | 0.0117862381400145 |
| GO:0044237 | cellular metabolic process | 0.0119018665912372 |
| GO:0016439 | tRNA-pseudouridine synthase activity | 0.0123315610873466 |
| GO:0032984 | macromolecular complex disassembly | 0.0123315610873466 |
| GO:0043283 | biopolymer metabolic process | 0.012846338578914 |
| GO:0000059 | protein import into nucleus, docking | 0.0136243134258624 |
| GO:0016363 | nuclear matrix | 0.0136243134258624 |
| GO:0006606 | protein import into nucleus | 0.0144890823308974 |
| GO:0051170 | nuclear import | 0.0150457621641735 |
| GO:0016835 | carbon-oxygen lyase activity | 0.0163909491848989 |
| GO:0008173 | RNA methyltransferase activity | 0.0184529769913999 |
| GO:0009982 | pseudouridine synthase activity | 0.0184529769913999 |
| GO:0044238 | primary metabolic process | 0.0194176846502125 |
| GO:0017038 | protein import | 0.0194176846502125 |
| GO:0009451 | RNA modification | 0.021700907197464 |
| GO:0033753 | establishment of ribosome localization | 0.0222169382126706 |
| GO:0000055 | ribosomal large subunit export from nucleus | 0.0222169382126706 |
| GO:0004588 | orotate phosphoribosyltransferase activity | 0.0222169382126706 |
| GO:0005674 | transcription factor TFIIF complex | 0.0222169382126706 |
| GO:0004590 | orotidine-5'-phosphate decarboxylase activity | 0.0222169382126706 |
| GO:0004425 | indole-3-glycerol-phosphate synthase activity | 0.0222169382126706 |
| GO:0004595 | pantetheine-phosphate adenylyltransferase activity | 0.0222169382126706 |
| GO:0006607 | NLS-bearing substrate import into nucleus | 0.0222169382126706 |
| GO:0005726 | perichromatin fibrils | 0.0222169382126706 |
| GO:0000054 | ribosome export from nucleus | 0.0222169382126706 |
| GO:0033750 | ribosome localization | 0.0222169382126706 |
| GO:0005850 | eukaryotic translation initiation factor 2 complex | 0.0222169382126706 |
| GO:0022411 | cellular component disassembly | 0.0225115369752949 |
| GO:0032991 | macromolecular complex | 0.0249157247809523 |
| GO:0016831 | carboxy-lyase activity | 0.0303590197785953 |
| GO:0016866 | intramolecular transferase activity | 0.0368497520621386 |
| GO:0043023 | ribosomal large subunit binding | 0.0376453987481112 |
| GO:0016427 | tRNA (cytosine)-methyltransferase activity | 0.0376453987481112 |
| GO:0004534 | 5'-3' exoribonuclease activity | 0.0376453987481112 |
| GO:0004140 | dephospho-CoA kinase activity | 0.0376453987481112 |
| GO:0006428 | isoleucyl-tRNA aminoacylation | 0.0376453987481112 |
| GO:0016428 | tRNA (cytosine-5-)-methyltransferase activity | 0.0376453987481112 |
| GO:0043558 | regulation of translation initiation in response to stress | 0.0376453987481112 |
| GO:0016149 | translation release factor activity, codon specific | 0.0376453987481112 |
| GO:0043555 | regulation of translation in response to stress | 0.0376453987481112 |
| GO:0004822 | isoleucine-tRNA ligase activity | 0.0376453987481112 |
Relative expression of the co-expression cluster over median <br>Analyst:
Enriched sample ontology terms on this co-expression cluster<b>Summary:</b>To summarize promoter activities (expression profile of a TSS region) across ~1000 samples, we performed enrichment analysis based on FANTOM5 Sample Ontology (FF ontology). The question here is “in which type of samples the promoter is more active”. To answer this question, we compared expressions (TPMs) in the samples associated with a sample ontology term and the rest of the samples by using the Mann-Whitney rank sum test. To summarize ontologies enriched in this co-expression cluster, we ran the same analysis on an averaged expression profile of all promoters that make up. <b>Analyst:</b> Hideya Kawaji <br><br>links to source dataset<br><br>cell_data<br>uberon_data<br><br>
| Ontology term | p-value | n |
|---|---|---|
| hematopoietic cell | 5.52e-10 | 32 |
| hematopoietic oligopotent progenitor cell | 5.52e-10 | 32 |
| hematopoietic stem cell | 5.52e-10 | 32 |
| angioblastic mesenchymal cell | 5.52e-10 | 32 |
| hematopoietic multipotent progenitor cell | 5.52e-10 | 32 |
| lymphocyte | 9.07e-09 | 13 |
| common lymphoid progenitor | 9.07e-09 | 13 |
| nucleate cell | 1.53e-08 | 16 |
| lymphoid lineage restricted progenitor cell | 2.68e-08 | 12 |
| T cell | 9.27e-08 | 11 |
| pro-T cell | 9.27e-08 | 11 |
| Ontology term | p-value | n |
|---|---|---|
| hemopoietic organ | 1.61e-08 | 29 |
| immune organ | 1.61e-08 | 29 |
| anterior region of body | 2.15e-07 | 43 |
| mixed endoderm/mesoderm-derived structure | 2.97e-07 | 35 |
| segment of respiratory tract | 6.57e-07 | 27 |
| thymus | 8.25e-07 | 23 |
| neck | 8.25e-07 | 23 |
| respiratory system epithelium | 8.25e-07 | 23 |
| hemolymphoid system gland | 8.25e-07 | 23 |
| pharyngeal epithelium | 8.25e-07 | 23 |
| thymic region | 8.25e-07 | 23 |
| pharyngeal gland | 8.25e-07 | 23 |
| entire pharyngeal arch endoderm | 8.25e-07 | 23 |
| thymus primordium | 8.25e-07 | 23 |
| early pharyngeal endoderm | 8.25e-07 | 23 |
| hematopoietic system | 9.01e-07 | 45 |
| blood island | 9.01e-07 | 45 |
TFBS overrepresentation<b>Summary:</b>The values shown are the p-values for overrepresentation of the motif in this coexpression cluster. So a small p-value means a strong overrepresentation. <b>Analyst:</b> Michiel de Hoon <br><br>link to source data <br> Novel motifs <br>data <br><br> Jaspar motifs <br>data
Novel motifs
JASPAR motifs
| Motifs | -log10(p-value) |
|---|---|
|
{{{tfbs_overrepresentation_jaspar}}} |
