Coexpression cluster:C1203
From FANTOM5_SSTAR
Full id: C1203_Endothelial_placenta_choriocarcinoma_Renal_Hair_Fibroblast_Myoblast
Phase1 CAGE Peaks
Hg19::chr14:75422292..75422308,- | p1@PGF |
Hg19::chr14:75469710..75469725,+ | p3@EIF2B2 |
Hg19::chr14:75469820..75469826,+ | p4@EIF2B2 |
Hg19::chr1:22264210..22264241,+ | p@chr1:22264210..22264241 + |
Hg19::chr7:150329732..150329739,- | p8@GIMAP6 |
Hg19::chr9:116716048..116716100,+ | p@chr9:116716048..116716100 + |
Hg19::chrX:26933473..26933478,+ | p@chrX:26933473..26933478 + |
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:0005851 | eukaryotic translation initiation factor 2B complex | 0.0142404022998594 |
GO:0014003 | oligodendrocyte development | 0.0142404022998594 |
GO:0009746 | response to hexose stimulus | 0.0142404022998594 |
GO:0009749 | response to glucose stimulus | 0.0142404022998594 |
GO:0048709 | oligodendrocyte differentiation | 0.0142404022998594 |
GO:0007267 | cell-cell signaling | 0.0142404022998594 |
GO:0009408 | response to heat | 0.0142404022998594 |
GO:0021782 | glial cell development | 0.0142404022998594 |
GO:0005525 | GTP binding | 0.0142404022998594 |
GO:0032561 | guanyl ribonucleotide binding | 0.0142404022998594 |
GO:0019001 | guanyl nucleotide binding | 0.0142404022998594 |
GO:0009743 | response to carbohydrate stimulus | 0.0142404022998594 |
GO:0001541 | ovarian follicle development | 0.0142404022998594 |
GO:0043434 | response to peptide hormone stimulus | 0.0142404022998594 |
GO:0051716 | cellular response to stimulus | 0.0142404022998594 |
GO:0022601 | menstrual cycle phase | 0.0142404022998594 |
GO:0022602 | menstrual cycle process | 0.0142404022998594 |
GO:0042552 | myelination | 0.0142404022998594 |
GO:0008585 | female gonad development | 0.0142404022998594 |
GO:0009266 | response to temperature stimulus | 0.0142404022998594 |
GO:0046545 | development of primary female sexual characteristics | 0.0142404022998594 |
GO:0010001 | glial cell differentiation | 0.0142404022998594 |
GO:0046660 | female sex differentiation | 0.0142404022998594 |
GO:0007272 | ensheathment of neurons | 0.0143331463710477 |
GO:0008366 | axon ensheathment | 0.0143331463710477 |
GO:0042698 | menstrual cycle | 0.0143331463710477 |
GO:0042063 | gliogenesis | 0.0150557125642903 |
GO:0048513 | organ development | 0.0151118031882626 |
GO:0001508 | regulation of action potential | 0.0155730405882961 |
GO:0008406 | gonad development | 0.0189321349448705 |
GO:0048608 | reproductive structure development | 0.0189321349448705 |
GO:0006446 | regulation of translational initiation | 0.0194320767044059 |
GO:0045137 | development of primary sexual characteristics | 0.0194320767044059 |
GO:0048609 | reproductive process in a multicellular organism | 0.0194320767044059 |
GO:0032504 | multicellular organism reproduction | 0.0194320767044059 |
GO:0010033 | response to organic substance | 0.0194320767044059 |
GO:0048731 | system development | 0.0219785942562387 |
GO:0008201 | heparin binding | 0.0219785942562387 |
GO:0009725 | response to hormone stimulus | 0.0219785942562387 |
GO:0007548 | sex differentiation | 0.0228355766681232 |
GO:0003006 | reproductive developmental process | 0.0239246494356034 |
GO:0048869 | cellular developmental process | 0.0244377192355441 |
GO:0030154 | cell differentiation | 0.0244377192355441 |
GO:0006413 | translational initiation | 0.0253594105001998 |
GO:0005539 | glycosaminoglycan binding | 0.0275420356370652 |
GO:0048856 | anatomical structure development | 0.0278034830529979 |
GO:0030247 | polysaccharide binding | 0.0278034830529979 |
GO:0003743 | translation initiation factor activity | 0.0281596910833609 |
GO:0001871 | pattern binding | 0.0290530936829223 |
GO:0001525 | angiogenesis | 0.0290530936829223 |
GO:0022618 | protein-RNA complex assembly | 0.030682397488284 |
GO:0048514 | blood vessel morphogenesis | 0.0316725005081661 |
GO:0007275 | multicellular organismal development | 0.0316725005081661 |
GO:0048646 | anatomical structure formation | 0.0318832880281242 |
GO:0001568 | blood vessel development | 0.0327591185942815 |
GO:0009628 | response to abiotic stimulus | 0.0327591185942815 |
GO:0001944 | vasculature development | 0.0327591185942815 |
GO:0006417 | regulation of translation | 0.0356663193063391 |
GO:0031326 | regulation of cellular biosynthetic process | 0.0376439794609047 |
GO:0008135 | translation factor activity, nucleic acid binding | 0.0376439794609047 |
GO:0009889 | regulation of biosynthetic process | 0.0399554155439376 |
GO:0008284 | positive regulation of cell proliferation | 0.0418738061862045 |
GO:0007417 | central nervous system development | 0.0418738061862045 |
GO:0022613 | ribonucleoprotein complex biogenesis and assembly | 0.0431349501067882 |
GO:0008083 | growth factor activity | 0.0436708477324468 |
GO:0022008 | neurogenesis | 0.0445273105530129 |
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 |
---|---|---|
endothelial cell of vascular tree | 1.11e-75 | 24 |
endothelial cell | 1.50e-61 | 36 |
blood vessel endothelial cell | 1.03e-57 | 18 |
embryonic blood vessel endothelial progenitor cell | 1.03e-57 | 18 |
meso-epithelial cell | 1.11e-47 | 45 |
lining cell | 6.21e-38 | 58 |
barrier cell | 6.21e-38 | 58 |
endothelial cell of artery | 6.55e-30 | 9 |
mesodermal cell | 5.92e-29 | 121 |
aortic endothelial cell | 1.28e-20 | 6 |
vein endothelial cell | 2.71e-20 | 6 |
lymphangioblast | 3.00e-19 | 6 |
endothelial cell of lymphatic vessel | 3.00e-19 | 6 |
vascular lymphangioblast | 3.00e-19 | 6 |
squamous epithelial cell | 1.85e-14 | 63 |
embryonic cell | 3.68e-11 | 250 |
endothelial cell of umbilical vein | 1.01e-10 | 3 |
capillary endothelial cell | 1.08e-10 | 3 |
thoracic aorta endothelial cell | 6.05e-08 | 2 |
skeletal muscle myoblast | 2.14e-07 | 4 |
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 | 0.213534 |
MA0004.1 | 0.502801 |
MA0006.1 | 0.341337 |
MA0007.1 | 0.483857 |
MA0009.1 | 0.973289 |
MA0014.1 | 0.610358 |
MA0017.1 | 0.380797 |
MA0019.1 | 0.652951 |
MA0024.1 | 0.867125 |
MA0025.1 | 1.10816 |
MA0027.1 | 2.59001 |
MA0028.1 | 0.940207 |
MA0029.1 | 0.886702 |
MA0030.1 | 0.875089 |
MA0031.1 | 0.809638 |
MA0038.1 | 0.60704 |
MA0040.1 | 0.892629 |
MA0041.1 | 0.521615 |
MA0042.1 | 0.48922 |
MA0043.1 | 0.973609 |
MA0046.1 | 0.962263 |
MA0048.1 | 1.25271 |
MA0050.1 | 0.490116 |
MA0051.1 | 0.602745 |
MA0052.1 | 0.896548 |
MA0055.1 | 0.362619 |
MA0056.1 | 0 |
MA0057.1 | 0.369442 |
MA0058.1 | 0.406232 |
MA0059.1 | 0.404929 |
MA0060.1 | 0.224688 |
MA0061.1 | 0.198335 |
MA0063.1 | 0 |
MA0066.1 | 0.607474 |
MA0067.1 | 1.29359 |
MA0068.1 | 0.162298 |
MA0069.1 | 0.958358 |
MA0070.1 | 0.947018 |
MA0071.1 | 0.567661 |
MA0072.1 | 0.942461 |
MA0073.1 | 0.0022316 |
MA0074.1 | 0.60198 |
MA0076.1 | 1.90063 |
MA0077.1 | 0.934645 |
MA0078.1 | 1.67751 |
MA0081.1 | 1.04478 |
MA0083.1 | 0.980893 |
MA0084.1 | 1.48179 |
MA0087.1 | 0.939982 |
MA0088.1 | 0.917255 |
MA0089.1 | 0 |
MA0090.1 | 0.436918 |
MA0091.1 | 0.505453 |
MA0092.1 | 1.17914 |
MA0093.1 | 0.344385 |
MA0095.1 | 0 |
MA0098.1 | 0 |
MA0100.1 | 0.621149 |
MA0101.1 | 0.347695 |
MA0103.1 | 0.88373 |
MA0105.1 | 0.104569 |
MA0106.1 | 0.648997 |
MA0107.1 | 0.274127 |
MA0108.2 | 1.8902 |
MA0109.1 | 0 |
MA0111.1 | 0.45062 |
MA0113.1 | 0.665691 |
MA0114.1 | 0.269076 |
MA0115.1 | 1.21667 |
MA0116.1 | 0.760835 |
MA0117.1 | 1.01134 |
MA0119.1 | 0.388712 |
MA0122.1 | 1.03753 |
MA0124.1 | 1.17486 |
MA0125.1 | 1.0901 |
MA0130.1 | 0 |
MA0131.1 | 0.722072 |
MA0132.1 | 0 |
MA0133.1 | 0 |
MA0135.1 | 1.00402 |
MA0136.1 | 0.614215 |
MA0139.1 | 0.186511 |
MA0140.1 | 0.564957 |
MA0141.1 | 0.403171 |
MA0142.1 | 0.777365 |
MA0143.1 | 0.66587 |
MA0144.1 | 0.708913 |
MA0145.1 | 0.581146 |
MA0146.1 | 0.324987 |
MA0147.1 | 0.281049 |
MA0148.1 | 0.528066 |
MA0149.1 | 0.555119 |
MA0062.2 | 2.39331 |
MA0035.2 | 0.564239 |
MA0039.2 | 0.403603 |
MA0138.2 | 0.704862 |
MA0002.2 | 0.611548 |
MA0137.2 | 0.36398 |
MA0104.2 | 0.223944 |
MA0047.2 | 0.636643 |
MA0112.2 | 0.556641 |
MA0065.2 | 0.0828768 |
MA0150.1 | 0.430951 |
MA0151.1 | 0 |
MA0152.1 | 0.571637 |
MA0153.1 | 1.07307 |
MA0154.1 | 0.102476 |
MA0155.1 | 0.910701 |
MA0156.1 | 0.959643 |
MA0157.1 | 0.749547 |
MA0158.1 | 0 |
MA0159.1 | 0.281681 |
MA0160.1 | 0.543522 |
MA0161.1 | 0 |
MA0162.1 | 0.485816 |
MA0163.1 | 0.19677 |
MA0164.1 | 0.678332 |
MA0080.2 | 0.344472 |
MA0018.2 | 0.650405 |
MA0099.2 | 0.572 |
MA0079.2 | 0.361922 |
MA0102.2 | 1.51913 |
MA0258.1 | 0.245543 |
MA0259.1 | 0.787775 |
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
(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)
TF | #promoters | Enrichment | p-value | q-value |
---|---|---|---|---|
CTBP2#1488 | 2 | 17.9191429540938 | 0.00506029706377731 | 0.0235660556962382 |
FOS#2353 | 5 | 6.42711093492458 | 0.000293119596542414 | 0.00310793071505515 |
IRF3#3661 | 2 | 13.4234149175685 | 0.0088581602305654 | 0.0336156897031365 |
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.