Coexpression cluster:C310
From FANTOM5_SSTAR
Full id: C310_caudate_medulla_spinal_thalamus_locus_globus_hippocampus
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
No results for this coexpression
Enriched Gene Ontology terms on this co-expression cluster<b>Summary:</b> Results for GOStat analysis on co-expressed clusters. Each cluster with promoters mapping to at least two different genes was analysed with GOStat (PMID: 14962934) with default parameter. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br>data
| GO ID | GO name | FDR corrected p-value |
|---|---|---|
| GO:0005856 | cytoskeleton | 0.0148251947762522 |
| GO:0022610 | biological adhesion | 0.0151374665443906 |
| GO:0007155 | cell adhesion | 0.0151374665443906 |
| GO:0051983 | regulation of chromosome segregation | 0.0151374665443906 |
| GO:0051988 | regulation of attachment of spindle microtubules to kinetochore | 0.0151374665443906 |
| GO:0008608 | attachment of spindle microtubules to kinetochore | 0.0151374665443906 |
| GO:0005200 | structural constituent of cytoskeleton | 0.0151374665443906 |
| GO:0007050 | cell cycle arrest | 0.0157391534528605 |
| GO:0005737 | cytoplasm | 0.0157391534528605 |
| GO:0001550 | ovarian cumulus expansion | 0.0157391534528605 |
| GO:0048165 | fused antrum stage, oogenesis | 0.0157391534528605 |
| GO:0022605 | oogenesis stage | 0.0157391534528605 |
| GO:0001547 | antral ovarian follicle growth | 0.0157391534528605 |
| GO:0008092 | cytoskeletal protein binding | 0.0180510776937678 |
| GO:0009397 | folic acid and derivative catabolic process | 0.0180510776937678 |
| GO:0009258 | 10-formyltetrahydrofolate catabolic process | 0.0180510776937678 |
| GO:0009256 | 10-formyltetrahydrofolate metabolic process | 0.0180510776937678 |
| GO:0007010 | cytoskeleton organization and biogenesis | 0.0208843123068426 |
| GO:0030877 | beta-catenin destruction complex | 0.0208843123068426 |
| GO:0043232 | intracellular non-membrane-bound organelle | 0.0208843123068426 |
| GO:0043228 | non-membrane-bound organelle | 0.0208843123068426 |
| GO:0060070 | Wnt receptor signaling pathway through beta-catenin | 0.0222302899749747 |
| GO:0016155 | formyltetrahydrofolate dehydrogenase activity | 0.0222302899749747 |
| GO:0005025 | transforming growth factor beta receptor activity, type I | 0.0255610711707634 |
| GO:0007158 | neuron adhesion | 0.028065349005499 |
| GO:0045786 | negative regulation of progression through cell cycle | 0.028065349005499 |
| GO:0016328 | lateral plasma membrane | 0.029204055500909 |
| GO:0008605 | protein kinase CK2 regulator activity | 0.029204055500909 |
| GO:0045736 | negative regulation of cyclin-dependent protein kinase activity | 0.0306597459072613 |
| GO:0008013 | beta-catenin binding | 0.0306597459072613 |
| GO:0016020 | membrane | 0.032026848311643 |
| GO:0001502 | cartilage condensation | 0.0340563595119381 |
| GO:0016742 | hydroxymethyl-, formyl- and related transferase activity | 0.0340563595119381 |
| GO:0004274 | dipeptidyl-peptidase IV activity | 0.0360543689207515 |
| GO:0044425 | membrane part | 0.0387702042148781 |
| GO:0045104 | intermediate filament cytoskeleton organization and biogenesis | 0.038778576974243 |
| GO:0045103 | intermediate filament-based process | 0.038778576974243 |
| GO:0046332 | SMAD binding | 0.038778576974243 |
| GO:0016337 | cell-cell adhesion | 0.038778576974243 |
| GO:0048477 | oogenesis | 0.038778576974243 |
| GO:0000074 | regulation of progression through cell cycle | 0.038778576974243 |
| GO:0051726 | regulation of cell cycle | 0.038778576974243 |
| GO:0004675 | transmembrane receptor protein serine/threonine kinase activity | 0.038778576974243 |
| GO:0001541 | ovarian follicle development | 0.038778576974243 |
| GO:0030509 | BMP signaling pathway | 0.038778576974243 |
| GO:0005024 | transforming growth factor beta receptor activity | 0.038778576974243 |
| GO:0004012 | phospholipid-translocating ATPase activity | 0.038778576974243 |
| GO:0015247 | aminophospholipid transporter activity | 0.038778576974243 |
| GO:0008239 | dipeptidyl-peptidase activity | 0.038778576974243 |
| GO:0016806 | dipeptidyl-peptidase and tripeptidyl-peptidase activity | 0.038778576974243 |
| GO:0015914 | phospholipid transport | 0.0423412243388375 |
| GO:0031114 | regulation of microtubule depolymerization | 0.0423412243388375 |
| GO:0007026 | negative regulation of microtubule depolymerization | 0.0423412243388375 |
| GO:0031111 | negative regulation of microtubule polymerization or depolymerization | 0.04264988463264 |
| GO:0007019 | microtubule depolymerization | 0.04264988463264 |
| GO:0022601 | menstrual cycle phase | 0.0432029043855401 |
| GO:0016528 | sarcoplasm | 0.0432029043855401 |
| GO:0022602 | menstrual cycle process | 0.0432029043855401 |
| GO:0016529 | sarcoplasmic reticulum | 0.0432029043855401 |
| GO:0003779 | actin binding | 0.0441054878504274 |
| GO:0008585 | female gonad development | 0.0441054878504274 |
| GO:0000287 | magnesium ion binding | 0.0441054878504274 |
| GO:0004372 | glycine hydroxymethyltransferase activity | 0.0441054878504274 |
| GO:0009953 | dorsal/ventral pattern formation | 0.0441054878504274 |
| GO:0031110 | regulation of microtubule polymerization or depolymerization | 0.0441054878504274 |
| GO:0046660 | female sex differentiation | 0.0441054878504274 |
| GO:0046545 | development of primary female sexual characteristics | 0.0441054878504274 |
| GO:0044464 | cell part | 0.0457671947271353 |
| GO:0000776 | kinetochore | 0.0457671947271353 |
| GO:0031109 | microtubule polymerization or depolymerization | 0.0459059997980458 |
| GO:0005548 | phospholipid transporter activity | 0.0459059997980458 |
| GO:0042698 | menstrual cycle | 0.0459247048038725 |
| GO:0043010 | camera-type eye development | 0.0459247048038725 |
| GO:0016646 | oxidoreductase activity, acting on the CH-NH group of donors, NAD or NADP as acceptor | 0.0459247048038725 |
| GO:0007292 | female gamete generation | 0.0459247048038725 |
| GO:0006996 | organelle organization and biogenesis | 0.0459247048038725 |
| GO:0051216 | cartilage development | 0.0459247048038725 |
| GO:0060173 | limb development | 0.0459247048038725 |
| GO:0035107 | appendage morphogenesis | 0.0459247048038725 |
| GO:0035108 | limb morphogenesis | 0.0459247048038725 |
| GO:0048589 | developmental growth | 0.0459247048038725 |
| GO:0048736 | appendage development | 0.0459247048038725 |
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><br>uberon_data<br><br>
Overrepresented TFBS (DNA) motifs on this co-expression cluster<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 | 0.00387792 |
| MA0004.1 | 0.0566508 |
| MA0006.1 | 0.0696281 |
| MA0007.1 | 0.418327 |
| MA0009.1 | 0.88381 |
| MA0014.1 | 0.00211649 |
| MA0017.1 | 0.096641 |
| MA0019.1 | 0.122811 |
| MA0024.1 | 0.254518 |
| MA0025.1 | 0.439186 |
| MA0027.1 | 1.8466 |
| MA0028.1 | 0.017688 |
| MA0029.1 | 0.268301 |
| MA0030.1 | 0.260095 |
| MA0031.1 | 0.215562 |
| MA0038.1 | 0.673838 |
| MA0040.1 | 0.272523 |
| MA0041.1 | 0.227378 |
| MA0042.1 | 0.428611 |
| MA0043.1 | 0.332327 |
| MA0046.1 | 0.865123 |
| MA0048.1 | 0.757337 |
| MA0050.1 | 0.430337 |
| MA0051.1 | 0.0979546 |
| MA0052.1 | 0.755709 |
| MA0055.1 | 0.232674 |
| MA0056.1 | 0 |
| MA0057.1 | 0.250203 |
| MA0058.1 | 0.116428 |
| MA0059.1 | 0.277816 |
| MA0060.1 | 0.0557315 |
| MA0061.1 | 0.182822 |
| MA0063.1 | 0 |
| MA0066.1 | 0.32926 |
| MA0067.1 | 0.597968 |
| MA0068.1 | 0.110422 |
| MA0069.1 | 0.320777 |
| MA0070.1 | 0.312273 |
| MA0071.1 | 0.588101 |
| MA0072.1 | 0.308875 |
| MA0073.1 | 3.75216e-07 |
| MA0074.1 | 0.322317 |
| MA0076.1 | 0.129848 |
| MA0077.1 | 0.818719 |
| MA0078.1 | 0.897097 |
| MA0081.1 | 0.115503 |
| MA0083.1 | 0.896748 |
| MA0084.1 | 0.768496 |
| MA0087.1 | 0.307032 |
| MA0088.1 | 0.0876906 |
| MA0089.1 | 0 |
| MA0090.1 | 0.142663 |
| MA0091.1 | 0.799469 |
| MA0092.1 | 0.687103 |
| MA0093.1 | 0.0154139 |
| MA0095.1 | 0 |
| MA0098.1 | 0 |
| MA0100.1 | 0.106764 |
| MA0101.1 | 0.617442 |
| MA0103.1 | 0.169168 |
| MA0105.1 | 0.203426 |
| MA0106.1 | 0.12076 |
| MA0107.1 | 0.380955 |
| MA0108.2 | 0.612085 |
| MA0109.1 | 0 |
| MA0111.1 | 0.0397253 |
| MA0113.1 | 0.807431 |
| MA0114.1 | 0.366131 |
| MA0115.1 | 0.530757 |
| MA0116.1 | 0.613342 |
| MA0117.1 | 0.36143 |
| MA0119.1 | 0.473302 |
| MA0122.1 | 0.382044 |
| MA0124.1 | 0.494979 |
| MA0125.1 | 0.42437 |
| MA0130.1 | 0 |
| MA0131.1 | 0.161082 |
| MA0132.1 | 0 |
| MA0133.1 | 0 |
| MA0135.1 | 0.355725 |
| MA0136.1 | 0.103403 |
| MA0139.1 | 0.42985 |
| MA0140.1 | 0.0810116 |
| MA0141.1 | 0.113951 |
| MA0142.1 | 0.194761 |
| MA0143.1 | 0.406261 |
| MA0144.1 | 1.05303 |
| MA0145.1 | 0.395589 |
| MA0146.1 | 0.0193469 |
| MA0147.1 | 0.401599 |
| MA0148.1 | 1.30961 |
| MA0149.1 | 0.0768601 |
| MA0062.2 | 0.00144723 |
| MA0035.2 | 0.0807052 |
| MA0039.2 | 8.78168e-05 |
| MA0138.2 | 0.460666 |
| MA0002.2 | 0.112762 |
| MA0137.2 | 0.997725 |
| MA0104.2 | 0.243491 |
| MA0047.2 | 0.114453 |
| MA0112.2 | 0.0545862 |
| MA0065.2 | 0.12116 |
| MA0150.1 | 0.0342009 |
| MA0151.1 | 0 |
| MA0152.1 | 0.5966 |
| MA0153.1 | 1.05663 |
| MA0154.1 | 0.0634095 |
| MA0155.1 | 0.00310384 |
| MA0156.1 | 0.0861658 |
| MA0157.1 | 0.177496 |
| MA0158.1 | 0 |
| MA0159.1 | 0.630496 |
| MA0160.1 | 0.0721072 |
| MA0161.1 | 0 |
| MA0162.1 | 0.00057372 |
| MA0163.1 | 0.0606262 |
| MA0164.1 | 0.136341 |
| MA0080.2 | 0.071606 |
| MA0018.2 | 0.121488 |
| MA0099.2 | 0.285408 |
| MA0079.2 | 1.15386e-08 |
| MA0102.2 | 0.803155 |
| MA0258.1 | 0.163134 |
| MA0259.1 | 0.244533 |
| MA0442.1 | 0 |
ENCODE TF ChIP-seq peak enrichment analysis<b>Summary:</b> For each TF and each co-expression cluster, the number of promoters with ENCODE TF ChIP signal was compared with the rest of promoters from the robust set using Fisher's exact test. Clusters with significant ChIP enrichment (q <= 0.05) after Benjamini-Hochberg correction were retained. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br><br>data
No analysis results for this cluster
Relative expression of the co-expression cluster<b>Summary:</b>Co-expression clusters are compared against FANTOM5 samples to obtain relative expression. <br><b>Analyst:</b>NA<br><br>link to data source<br> data
This analysis result is provided for C0 - C305 clusters.
