MCL coexpression mm9:108
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 | 3.15892471530941e-08 |
| GO:0006350 | transcription | 1.81634119877763e-07 |
| GO:0010468 | regulation of gene expression | 3.68979121648299e-07 |
| GO:0045449 | regulation of transcription | 4.06331862039578e-07 |
| GO:0019219 | regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process | 6.05984590256704e-07 |
| GO:0006355 | regulation of transcription, DNA-dependent | 9.17927765930472e-07 |
| GO:0006351 | transcription, DNA-dependent | 1.060866475235e-06 |
| GO:0032774 | RNA biosynthetic process | 1.060866475235e-06 |
| GO:0019222 | regulation of metabolic process | 1.39904230341091e-06 |
| GO:0031323 | regulation of cellular metabolic process | 4.04875665017288e-06 |
| GO:0000792 | heterochromatin | 6.27932474364799e-06 |
| GO:0043283 | biopolymer metabolic process | 1.3271587679848e-05 |
| GO:0050789 | regulation of biological process | 1.76227075149709e-05 |
| GO:0050794 | regulation of cellular process | 2.11669458286095e-05 |
| GO:0005720 | nuclear heterochromatin | 3.51529592662672e-05 |
| GO:0010467 | gene expression | 3.6371338529627e-05 |
| GO:0016568 | chromatin modification | 4.28447824998891e-05 |
| GO:0065007 | biological regulation | 4.45921775069015e-05 |
| GO:0006139 | nucleobase, nucleoside, nucleotide and nucleic acid metabolic process | 7.13967497693972e-05 |
| GO:0043231 | intracellular membrane-bound organelle | 7.36960617296392e-05 |
| GO:0043227 | membrane-bound organelle | 7.36960617296392e-05 |
| GO:0016070 | RNA metabolic process | 7.39233263127378e-05 |
| GO:0000790 | nuclear chromatin | 7.98236461854426e-05 |
| GO:0043170 | macromolecule metabolic process | 9.52431606098504e-05 |
| GO:0044238 | primary metabolic process | 0.000159122765132399 |
| GO:0001739 | sex chromatin | 0.000160042875407345 |
| GO:0000803 | sex chromosome | 0.000199864708894719 |
| GO:0043229 | intracellular organelle | 0.000250861175813654 |
| GO:0043226 | organelle | 0.000250861175813654 |
| GO:0044237 | cellular metabolic process | 0.000503601991882903 |
| GO:0006325 | establishment and/or maintenance of chromatin architecture | 0.000547852626210717 |
| GO:0006323 | DNA packaging | 0.000640400642748319 |
| GO:0000785 | chromatin | 0.000762772902849071 |
| GO:0001835 | blastocyst hatching | 0.00100365454975742 |
| GO:0035188 | hatching | 0.00100365454975742 |
| GO:0044454 | nuclear chromosome part | 0.00113380249672702 |
| GO:0003677 | DNA binding | 0.0013785314832874 |
| GO:0000228 | nuclear chromosome | 0.00194399302459289 |
| GO:0016514 | SWI/SNF complex | 0.00224193530759556 |
| GO:0005694 | chromosome | 0.00252093377276147 |
| GO:0003676 | nucleic acid binding | 0.00305265673105741 |
| GO:0051276 | chromosome organization and biogenesis | 0.00351885106715107 |
| GO:0044424 | intracellular part | 0.0045768620305623 |
| GO:0044428 | nuclear part | 0.0045768620305623 |
| GO:0044427 | chromosomal part | 0.00612706227195036 |
| GO:0005622 | intracellular | 0.0112371619048192 |
| GO:0016585 | chromatin remodeling complex | 0.0228530859712625 |
| GO:0046831 | regulation of RNA export from nucleus | 0.034499835106343 |
| GO:0003975 | UDP-N-acetylglucosamine-dolichyl-phosphate N-acetylglucosaminephosphotransferase activity | 0.034499835106343 |
| GO:0045090 | retroviral genome replication | 0.034499835106343 |
| GO:0008963 | phospho-N-acetylmuramoyl-pentapeptide-transferase activity | 0.034499835106343 |
| GO:0007088 | regulation of mitosis | 0.0375799132490187 |
| GO:0006259 | DNA metabolic process | 0.0436105060817978 |
| GO:0003682 | chromatin binding | 0.0445383486760207 |
| GO:0001824 | blastocyst development | 0.0458278280095512 |
| GO:0008430 | selenium binding | 0.0458278280095512 |
| GO:0009892 | negative regulation of metabolic process | 0.0474749508064222 |
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 |
|---|---|---|
| neuron | 1.78e-12 | 33 |
| neuronal stem cell | 1.78e-12 | 33 |
| neuroblast | 1.78e-12 | 33 |
| electrically signaling cell | 1.78e-12 | 33 |
| ectodermal cell | 8.53e-12 | 44 |
| neurectodermal cell | 8.53e-12 | 44 |
| neural cell | 1.36e-11 | 43 |
| electrically responsive cell | 2.06e-10 | 39 |
| electrically active cell | 2.06e-10 | 39 |
| non-terminally differentiated cell | 4.92e-10 | 49 |
| CNS neuron (sensu Vertebrata) | 4.22e-09 | 23 |
| neuroblast (sensu Vertebrata) | 4.22e-09 | 23 |
| Ontology term | p-value | n |
|---|---|---|
| central nervous system | 3.97e-13 | 73 |
| nervous system | 1.50e-12 | 75 |
| ectoderm-derived structure | 2.34e-12 | 95 |
| ectoderm | 2.34e-12 | 95 |
| presumptive ectoderm | 2.34e-12 | 95 |
| neurectoderm | 9.29e-12 | 64 |
| neural plate | 9.29e-12 | 64 |
| presumptive neural plate | 9.29e-12 | 64 |
| structure with developmental contribution from neural crest | 4.65e-11 | 92 |
| ecto-epithelium | 1.74e-10 | 73 |
| pre-chordal neural plate | 2.87e-09 | 49 |
| neural tube | 3.09e-08 | 52 |
| neural rod | 3.09e-08 | 52 |
| future spinal cord | 3.09e-08 | 52 |
| neural keel | 3.09e-08 | 52 |
| regional part of nervous system | 4.71e-08 | 54 |
| multi-cellular organism | 6.52e-08 | 333 |
| embryo | 7.09e-08 | 320 |
| regional part of forebrain | 6.70e-07 | 39 |
| forebrain | 6.70e-07 | 39 |
| future forebrain | 6.70e-07 | 39 |
| anterior neural tube | 8.03e-07 | 40 |
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) |
|---|---|
| MA0003.1 | 18.289 |
| MA0004.1 | 1.83707 |
| MA0006.1 | 3.12763 |
| MA0007.1 | 0.448276 |
| MA0009.1 | 0.0612679 |
| MA0014.1 | 16.6733 |
| MA0017.1 | 0.0143055 |
| MA0019.1 | 0.65408 |
| MA0024.1 | 1.5536 |
| MA0025.1 | 0.165497 |
| MA0027.1 | 1.37997 |
| MA0028.1 | 0.612677 |
| MA0029.1 | 0.161831 |
| MA0030.1 | 0.379974 |
| MA0031.1 | 0.589672 |
| MA0038.1 | 0.0323731 |
| MA0040.1 | 0.0654871 |
| MA0041.1 | 0.00130293 |
| MA0042.1 | 0.000975472 |
| MA0043.1 | 0.664753 |
| MA0046.1 | 0.0738138 |
| MA0048.1 | 1.81259 |
| MA0050.1 | 0.0335149 |
| MA0051.1 | 0.0352645 |
| MA0052.1 | 0.0682899 |
| MA0055.1 | 0.162931 |
| MA0056.1 | 0 |
| MA0057.1 | 12.2241 |
| MA0058.1 | 4.09502 |
| MA0059.1 | 2.68657 |
| MA0060.1 | 0.913244 |
| MA0061.1 | 0.533428 |
| MA0063.1 | 0 |
| MA0066.1 | 0.34239 |
| MA0067.1 | 0.232206 |
| MA0068.1 | 3.50696 |
| MA0069.1 | 0.0684094 |
| MA0070.1 | 0.0650422 |
| MA0071.1 | 0.0331824 |
| MA0072.1 | 0.062178 |
| MA0073.1 | 43.4752 |
| MA0074.1 | 0.439657 |
| MA0076.1 | 0.650383 |
| MA0077.1 | 0.446955 |
| MA0078.1 | 0.131538 |
| MA0081.1 | 0.445704 |
| MA0083.1 | 0.0977058 |
| MA0084.1 | 0.475311 |
| MA0087.1 | 0.0801732 |
| MA0088.1 | 1.76932 |
| MA0089.1 | 0 |
| MA0090.1 | 0.148961 |
| MA0091.1 | 0.0634745 |
| MA0092.1 | 0.551598 |
| MA0093.1 | 3.10552 |
| MA0095.1 | 0 |
| MA0098.1 | 0 |
| MA0100.1 | 0.40795 |
| MA0101.1 | 0.165002 |
| MA0103.1 | 0.00644654 |
| MA0105.1 | 3.05487 |
| MA0106.1 | 0.486464 |
| MA0107.1 | 0.035936 |
| MA0108.2 | 0.021509 |
| MA0109.1 | 0 |
| MA0111.1 | 0.284394 |
| MA0113.1 | 0.0396188 |
| MA0114.1 | 0.0864832 |
| MA0115.1 | 0.0992504 |
| MA0116.1 | 2.77885 |
| MA0117.1 | 0.290328 |
| MA0119.1 | 0.554567 |
| MA0122.1 | 0.645398 |
| MA0124.1 | 0.199034 |
| MA0125.1 | 0.156605 |
| MA0130.1 | 0 |
| MA0131.1 | 1.32048 |
| MA0132.1 | 0 |
| MA0133.1 | 0 |
| MA0135.1 | 0.11432 |
| MA0136.1 | 0.0757037 |
| MA0139.1 | 5.04927 |
| MA0140.1 | 0.407641 |
| MA0141.1 | 0.0254036 |
| MA0142.1 | 0.12791 |
| MA0143.1 | 0.263943 |
| MA0144.1 | 0.144493 |
| MA0145.1 | 0.88788 |
| MA0146.1 | 10.21 |
| MA0147.1 | 6.25049 |
| MA0148.1 | 0.0657204 |
| MA0149.1 | 1.5248 |
| MA0062.2 | 0.949799 |
| MA0035.2 | 0.135724 |
| MA0039.2 | 10.1924 |
| MA0138.2 | 0.618245 |
| MA0002.2 | 0.041551 |
| MA0137.2 | 0.0992968 |
| MA0104.2 | 8.6942 |
| MA0047.2 | 0.204339 |
| MA0112.2 | 0.65215 |
| MA0065.2 | 1.02876 |
| MA0150.1 | 0.0452099 |
| MA0151.1 | 0 |
| MA0152.1 | 0.204493 |
| MA0153.1 | 0.122178 |
| MA0154.1 | 0.273718 |
| MA0155.1 | 4.01768 |
| MA0156.1 | 0.0452994 |
| MA0157.1 | 0.258054 |
| MA0158.1 | 0 |
| MA0159.1 | 1.27549 |
| MA0160.1 | 0.0263222 |
| MA0161.1 | 0 |
| MA0162.1 | 12.5056 |
| MA0163.1 | 19.3793 |
| MA0164.1 | 0.309223 |
| MA0080.2 | 0.0717589 |
| MA0018.2 | 0.329605 |
| MA0099.2 | 0.360652 |
| MA0079.2 | 95.688 |
| MA0102.2 | 0.518907 |
| MA0258.1 | 0.107363 |
| MA0259.1 | 2.57367 |
| MA0442.1 | 0 |
