Coexpression cluster:C271
From FANTOM5_SSTAR
Full id: C271_pineal_spinal_locus_globus_medulla_thalamus_cerebellum
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:0044425 | membrane part | 0.0157114682679854 |
| GO:0016020 | membrane | 0.0157114682679854 |
| GO:0016021 | integral to membrane | 0.0157114682679854 |
| GO:0016324 | apical plasma membrane | 0.0157114682679854 |
| GO:0031224 | intrinsic to membrane | 0.0157114682679854 |
| GO:0032501 | multicellular organismal process | 0.0157114682679854 |
| GO:0048388 | endosomal lumen acidification | 0.0157114682679854 |
| GO:0045163 | clustering of voltage-gated potassium channels | 0.0157114682679854 |
| GO:0045177 | apical part of cell | 0.0191512452993784 |
| GO:0009653 | anatomical structure morphogenesis | 0.01982022288438 |
| GO:0005250 | A-type (transient outward) potassium channel activity | 0.01982022288438 |
| GO:0032989 | cellular structure morphogenesis | 0.01982022288438 |
| GO:0000902 | cell morphogenesis | 0.01982022288438 |
| GO:0048856 | anatomical structure development | 0.01982022288438 |
| GO:0019904 | protein domain specific binding | 0.0229795800062908 |
| GO:0032502 | developmental process | 0.0229795800062908 |
| GO:0050877 | neurological system process | 0.0229795800062908 |
| GO:0030955 | potassium ion binding | 0.0229795800062908 |
| GO:0044459 | plasma membrane part | 0.0229795800062908 |
| GO:0015271 | outward rectifier potassium channel activity | 0.0229795800062908 |
| GO:0003828 | alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity | 0.0229795800062908 |
| GO:0009986 | cell surface | 0.0229795800062908 |
| GO:0048666 | neuron development | 0.0237715222228541 |
| GO:0045161 | neuronal ion channel clustering | 0.0253099614812186 |
| GO:0007267 | cell-cell signaling | 0.0253099614812186 |
| GO:0045851 | pH reduction | 0.0296281311295286 |
| GO:0051453 | regulation of cellular pH | 0.0296281311295286 |
| GO:0051452 | cellular pH reduction | 0.0296281311295286 |
| GO:0046923 | ER retention sequence binding | 0.0296281311295286 |
| GO:0003008 | system process | 0.0296281311295286 |
| GO:0007032 | endosome organization and biogenesis | 0.0304581850844502 |
| GO:0005513 | detection of calcium ion | 0.0304581850844502 |
| GO:0030182 | neuron differentiation | 0.0304581850844502 |
| GO:0031420 | alkali metal ion binding | 0.0313964221689795 |
| GO:0007601 | visual perception | 0.0313964221689795 |
| GO:0050953 | sensory perception of light stimulus | 0.0313964221689795 |
| GO:0006688 | glycosphingolipid biosynthetic process | 0.0330198688334164 |
| GO:0042551 | neuron maturation | 0.0330198688334164 |
| GO:0048699 | generation of neurons | 0.0339901125499411 |
| GO:0006813 | potassium ion transport | 0.0367104905655899 |
| GO:0030641 | cellular hydrogen ion homeostasis | 0.0367104905655899 |
| GO:0022008 | neurogenesis | 0.0368328655832253 |
| GO:0004993 | serotonin receptor activity | 0.0379126926495747 |
| GO:0030004 | cellular monovalent inorganic cation homeostasis | 0.0400758765880435 |
| GO:0009247 | glycolipid biosynthetic process | 0.0400758765880435 |
| GO:0055067 | monovalent inorganic cation homeostasis | 0.0400758765880435 |
| GO:0007268 | synaptic transmission | 0.0400758765880435 |
| GO:0031901 | early endosome membrane | 0.0409695555806811 |
| GO:0005391 | sodium:potassium-exchanging ATPase activity | 0.0409695555806811 |
| GO:0042169 | SH2 domain binding | 0.0409695555806811 |
| GO:0009593 | detection of chemical stimulus | 0.0409695555806811 |
| GO:0022832 | voltage-gated channel activity | 0.0409695555806811 |
| GO:0005244 | voltage-gated ion channel activity | 0.0409695555806811 |
| GO:0019198 | transmembrane receptor protein phosphatase activity | 0.0409695555806811 |
| GO:0005001 | transmembrane receptor protein tyrosine phosphatase activity | 0.0409695555806811 |
| GO:0006687 | glycosphingolipid metabolic process | 0.0409695555806811 |
| GO:0012505 | endomembrane system | 0.0409695555806811 |
| GO:0016043 | cellular component organization and biogenesis | 0.0409695555806811 |
| GO:0019226 | transmission of nerve impulse | 0.0409695555806811 |
| GO:0030165 | PDZ domain binding | 0.041745255595325 |
| GO:0005048 | signal sequence binding | 0.0424104566331044 |
| GO:0030148 | sphingolipid biosynthetic process | 0.0424104566331044 |
| GO:0000139 | Golgi membrane | 0.0465679210758911 |
| GO:0005100 | Rho GTPase activator activity | 0.046927511566585 |
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 | 0.159322 |
| MA0004.1 | 0.143101 |
| MA0006.1 | 0.641878 |
| MA0007.1 | 0.301699 |
| MA0009.1 | 0.275766 |
| MA0014.1 | 0.492152 |
| MA0017.1 | 0.155235 |
| MA0019.1 | 0.0887288 |
| MA0024.1 | 0.590327 |
| MA0025.1 | 0.376628 |
| MA0027.1 | 1.7662 |
| MA0028.1 | 0.00904529 |
| MA0029.1 | 0.216921 |
| MA0030.1 | 0.209437 |
| MA0031.1 | 0.169247 |
| MA0038.1 | 0.245663 |
| MA0040.1 | 0.22078 |
| MA0041.1 | 0.159732 |
| MA0042.1 | 0.131646 |
| MA0043.1 | 0.275993 |
| MA0046.1 | 0.267991 |
| MA0048.1 | 0.44608 |
| MA0050.1 | 1.74588 |
| MA0051.1 | 0.240959 |
| MA0052.1 | 0.635267 |
| MA0055.1 | 0.000148357 |
| MA0056.1 | 0 |
| MA0057.1 | 0.922737 |
| MA0058.1 | 0.0155786 |
| MA0059.1 | 0.36391 |
| MA0060.1 | 0.0260418 |
| MA0061.1 | 0.624595 |
| MA0063.1 | 0 |
| MA0066.1 | 0.526753 |
| MA0067.1 | 0.529198 |
| MA0068.1 | 1.25405 |
| MA0069.1 | 0.265257 |
| MA0070.1 | 0.257372 |
| MA0071.1 | 0.204012 |
| MA0072.1 | 0.254227 |
| MA0073.1 | 13.6389 |
| MA0074.1 | 0.240126 |
| MA0076.1 | 0.0822353 |
| MA0077.1 | 0.248866 |
| MA0078.1 | 0.360912 |
| MA0081.1 | 1.26097 |
| MA0083.1 | 0.281174 |
| MA0084.1 | 0.695499 |
| MA0087.1 | 0.252522 |
| MA0088.1 | 0.418374 |
| MA0089.1 | 0 |
| MA0090.1 | 0.0920042 |
| MA0091.1 | 0.337537 |
| MA0092.1 | 0.275148 |
| MA0093.1 | 0.0401794 |
| MA0095.1 | 0 |
| MA0098.1 | 0 |
| MA0100.1 | 0.261383 |
| MA0101.1 | 0.667006 |
| MA0103.1 | 0.217682 |
| MA0105.1 | 0.463525 |
| MA0106.1 | 0.293574 |
| MA0107.1 | 0.598268 |
| MA0108.2 | 0.501004 |
| MA0109.1 | 0 |
| MA0111.1 | 0.470228 |
| MA0113.1 | 0.313585 |
| MA0114.1 | 0.0152793 |
| MA0115.1 | 0.464275 |
| MA0116.1 | 0.862315 |
| MA0117.1 | 0.303182 |
| MA0119.1 | 0.164909 |
| MA0122.1 | 0.322548 |
| MA0124.1 | 0.429905 |
| MA0125.1 | 0.362554 |
| MA0130.1 | 0 |
| MA0131.1 | 0.121301 |
| MA0132.1 | 0 |
| MA0133.1 | 0 |
| MA0135.1 | 0.297838 |
| MA0136.1 | 0.0726858 |
| MA0139.1 | 0.150236 |
| MA0140.1 | 0.44418 |
| MA0141.1 | 0.0703447 |
| MA0142.1 | 0.150759 |
| MA0143.1 | 0.647667 |
| MA0144.1 | 0.733994 |
| MA0145.1 | 0.0762875 |
| MA0146.1 | 0.908332 |
| MA0147.1 | 0.882517 |
| MA0148.1 | 0.0430398 |
| MA0149.1 | 6.24226 |
| MA0062.2 | 0.000448472 |
| MA0035.2 | 0.0544556 |
| MA0039.2 | 0.993789 |
| MA0138.2 | 0.362512 |
| MA0002.2 | 0.0565951 |
| MA0137.2 | 1.03962 |
| MA0104.2 | 0.386804 |
| MA0047.2 | 0.0817751 |
| MA0112.2 | 0.751125 |
| MA0065.2 | 0.29265 |
| MA0150.1 | 0.221137 |
| MA0151.1 | 0 |
| MA0152.1 | 0.0569756 |
| MA0153.1 | 0.349438 |
| MA0154.1 | 0.956989 |
| MA0155.1 | 0.301857 |
| MA0156.1 | 0.0100543 |
| MA0157.1 | 0.135578 |
| MA0158.1 | 0 |
| MA0159.1 | 0.422206 |
| MA0160.1 | 0.180181 |
| MA0161.1 | 0 |
| MA0162.1 | 0.185583 |
| MA0163.1 | 0.212826 |
| MA0164.1 | 1.64551 |
| MA0080.2 | 0.240349 |
| MA0018.2 | 0.295242 |
| MA0099.2 | 0.0571009 |
| MA0079.2 | 10.9989 |
| MA0102.2 | 0.729507 |
| MA0258.1 | 1.88301 |
| MA0259.1 | 0.0205559 |
| 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
