Coexpression cluster:C368
From FANTOM5_SSTAR
Full id: C368_Pericytes_Fibroblast_Nucleus_Anulus_Meningeal_Mesenchymal_Smooth
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:0048295 | positive regulation of isotype switching to IgE isotypes | 0.0131869235943323 |
| GO:0048289 | isotype switching to IgE isotypes | 0.0131869235943323 |
| GO:0002829 | negative regulation of T-helper 2 type immune response | 0.0131869235943323 |
| GO:0002828 | regulation of T-helper 2 type immune response | 0.0131869235943323 |
| GO:0048293 | regulation of isotype switching to IgE isotypes | 0.0131869235943323 |
| GO:0002820 | negative regulation of adaptive immune response | 0.0131869235943323 |
| GO:0002823 | negative regulation of adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains | 0.0131869235943323 |
| GO:0045830 | positive regulation of isotype switching | 0.0131869235943323 |
| GO:0051291 | protein heterooligomerization | 0.0131869235943323 |
| GO:0050777 | negative regulation of immune response | 0.0131869235943323 |
| GO:0045191 | regulation of isotype switching | 0.0131869235943323 |
| GO:0002683 | negative regulation of immune system process | 0.0131869235943323 |
| GO:0042092 | T-helper 2 type immune response | 0.0131869235943323 |
| GO:0002208 | somatic diversification of immunoglobulins during immune response | 0.0131869235943323 |
| GO:0002381 | immunoglobulin production during immune response | 0.0131869235943323 |
| GO:0002204 | somatic recombination of immunoglobulin genes during immune response | 0.0131869235943323 |
| GO:0008301 | DNA bending activity | 0.0131869235943323 |
| GO:0032432 | actin filament bundle | 0.0131869235943323 |
| GO:0045190 | isotype switching | 0.0131869235943323 |
| GO:0001725 | stress fiber | 0.0131869235943323 |
| GO:0016447 | somatic recombination of immunoglobulin gene segments | 0.0135501835469304 |
| GO:0002819 | regulation of adaptive immune response | 0.0135501835469304 |
| GO:0002822 | regulation of adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains. | 0.0135501835469304 |
| GO:0016444 | somatic cell DNA recombination | 0.0138291801550393 |
| GO:0016445 | somatic diversification of immunoglobulins | 0.0138291801550393 |
| GO:0002562 | somatic diversification of immune receptors via germline recombination within a single locus | 0.0138291801550393 |
| GO:0002200 | somatic diversification of immune receptors | 0.0142039512283195 |
| GO:0002377 | immunoglobulin production | 0.0148756627066806 |
| GO:0050871 | positive regulation of B cell activation | 0.0148756627066806 |
| GO:0051241 | negative regulation of multicellular organismal process | 0.0193197341117233 |
| GO:0050864 | regulation of B cell activation | 0.0193197341117233 |
| GO:0002440 | production of molecular mediator of immune response | 0.0202108918231167 |
| GO:0043565 | sequence-specific DNA binding | 0.0308738063090595 |
| GO:0051251 | positive regulation of lymphocyte activation | 0.0345488266684464 |
| GO:0016064 | immunoglobulin mediated immune response | 0.0345488266684464 |
| GO:0019724 | B cell mediated immunity | 0.0345488266684464 |
| GO:0042113 | B cell activation | 0.0390018187822978 |
| GO:0051259 | protein oligomerization | 0.0390018187822978 |
| GO:0048471 | perinuclear region of cytoplasm | 0.0392230169527433 |
| GO:0002449 | lymphocyte mediated immunity | 0.0413951774132484 |
| GO:0002250 | adaptive immune response | 0.0413951774132484 |
| GO:0002460 | adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains | 0.0413951774132484 |
| GO:0051249 | regulation of lymphocyte activation | 0.0413951774132484 |
| GO:0048519 | negative regulation of biological process | 0.0413951774132484 |
| GO:0002443 | leukocyte mediated immunity | 0.0413951774132484 |
| GO:0050865 | regulation of cell activation | 0.0415287325000021 |
| GO:0050776 | regulation of immune response | 0.0496894167890069 |
| GO:0002682 | regulation of immune system process | 0.0496894167890069 |
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 |
|---|---|---|
| leptomeningeal cell | 2.59e-18 | 3 |
| ciliated cell | 1.15e-17 | 3 |
| ciliated epithelial cell | 1.15e-17 | 3 |
| multi-ciliated epithelial cell | 1.15e-17 | 3 |
| non-pigmented ciliary epithelial cell | 1.15e-17 | 3 |
| central nervous system pericyte | 4.14e-13 | 2 |
| fibroblast of choroid plexus | 5.24e-13 | 2 |
| smooth muscle cell of the brain vasculature | 8.41e-09 | 3 |
| astrocyte of the cerebellum | 1.06e-08 | 3 |
| nucleus pulposus cell of intervertebral disc | 1.10e-08 | 3 |
| pericyte cell | 5.86e-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 | 1.24235 |
| MA0004.1 | 0.0961566 |
| MA0006.1 | 0.0332857 |
| MA0007.1 | 0.612505 |
| MA0009.1 | 0.417521 |
| MA0014.1 | 0.0116099 |
| MA0017.1 | 1.07347 |
| MA0019.1 | 0.180682 |
| MA0024.1 | 2.41036 |
| MA0025.1 | 0.531977 |
| MA0027.1 | 1.95983 |
| MA0028.1 | 0.346327 |
| MA0029.1 | 0.347825 |
| MA0030.1 | 0.338746 |
| MA0031.1 | 0.288912 |
| MA0038.1 | 0.15256 |
| MA0040.1 | 0.92917 |
| MA0041.1 | 0.343445 |
| MA0042.1 | 0.0896515 |
| MA0043.1 | 0.417784 |
| MA0046.1 | 0.408463 |
| MA0048.1 | 0.246211 |
| MA0050.1 | 0.0900741 |
| MA0051.1 | 0.150026 |
| MA0052.1 | 0.355576 |
| MA0055.1 | 1.45189 |
| MA0056.1 | 0 |
| MA0057.1 | 4.53052 |
| MA0058.1 | 0.0546193 |
| MA0059.1 | 0.441047 |
| MA0060.1 | 0.128077 |
| MA0061.1 | 0.205567 |
| MA0063.1 | 0 |
| MA0066.1 | 0.152817 |
| MA0067.1 | 0.697961 |
| MA0068.1 | 0.416765 |
| MA0069.1 | 0.405267 |
| MA0070.1 | 0.396023 |
| MA0071.1 | 0.407159 |
| MA0072.1 | 0.392323 |
| MA0073.1 | 2.78749 |
| MA0074.1 | 0.149576 |
| MA0076.1 | 0.477402 |
| MA0077.1 | 1.00303 |
| MA0078.1 | 0.213745 |
| MA0081.1 | 0.441387 |
| MA0083.1 | 0.423797 |
| MA0084.1 | 0.873335 |
| MA0087.1 | 0.390315 |
| MA0088.1 | 1.74859 |
| MA0089.1 | 0 |
| MA0090.1 | 0.508642 |
| MA0091.1 | 0.0974512 |
| MA0092.1 | 1.99739 |
| MA0093.1 | 0.137242 |
| MA0095.1 | 0 |
| MA0098.1 | 0 |
| MA0100.1 | 0.94126 |
| MA0101.1 | 0.140397 |
| MA0103.1 | 0.125753 |
| MA0105.1 | 3.73481 |
| MA0106.1 | 0.527317 |
| MA0107.1 | 0.0171106 |
| MA0108.2 | 0.286605 |
| MA0109.1 | 0 |
| MA0111.1 | 0.538416 |
| MA0113.1 | 0.55303 |
| MA0114.1 | 1.28653 |
| MA0115.1 | 0.62811 |
| MA0116.1 | 2.73912 |
| MA0117.1 | 1.14035 |
| MA0119.1 | 0.407887 |
| MA0122.1 | 0.471243 |
| MA0124.1 | 0.590699 |
| MA0125.1 | 0.516292 |
| MA0130.1 | 0 |
| MA0131.1 | 0.226279 |
| MA0132.1 | 0 |
| MA0133.1 | 0 |
| MA0135.1 | 1.12711 |
| MA0136.1 | 0.156833 |
| MA0139.1 | 1.76143 |
| MA0140.1 | 0.403323 |
| MA0141.1 | 0.437416 |
| MA0142.1 | 0.265252 |
| MA0143.1 | 0.553308 |
| MA0144.1 | 0.567573 |
| MA0145.1 | 1.94091 |
| MA0146.1 | 1.65374 |
| MA0147.1 | 0.0184972 |
| MA0148.1 | 0.352161 |
| MA0149.1 | 0.389467 |
| MA0062.2 | 0.0896156 |
| MA0035.2 | 0.128078 |
| MA0039.2 | 2.2851 |
| MA0138.2 | 0.614598 |
| MA0002.2 | 0.113455 |
| MA0137.2 | 0.358888 |
| MA0104.2 | 0.00891586 |
| MA0047.2 | 0.170483 |
| MA0112.2 | 0.995408 |
| MA0065.2 | 0.65029 |
| MA0150.1 | 0.853276 |
| MA0151.1 | 0 |
| MA0152.1 | 0.132183 |
| MA0153.1 | 0.501603 |
| MA0154.1 | 9.17245 |
| MA0155.1 | 1.16903 |
| MA0156.1 | 0.0408263 |
| MA0157.1 | 0.245386 |
| MA0158.1 | 0 |
| MA0159.1 | 0.407932 |
| MA0160.1 | 0.116872 |
| MA0161.1 | 0 |
| MA0162.1 | 0.582787 |
| MA0163.1 | 2.28494 |
| MA0164.1 | 0.196993 |
| MA0080.2 | 0.137324 |
| MA0018.2 | 0.179075 |
| MA0099.2 | 2.59258 |
| MA0079.2 | 11.7758 |
| MA0102.2 | 0.908736 |
| MA0258.1 | 1.13577 |
| MA0259.1 | 0.428772 |
| 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 |
|---|---|---|---|---|
| FOSL1#8061 | 5 | 6.61892995272883 | 0.000851082172346474 | 0.00640944411578406 |
| FOSL2#2355 | 6 | 3.38604012091234 | 0.00736957552356816 | 0.0304651321289556 |
| HNF4A#3172 | 6 | 4.62645807259074 | 0.00157809441712721 | 0.00994656625409467 |
| HNF4G#3174 | 6 | 5.75068450528936 | 0.000510261340278916 | 0.00446698944823048 |
| JUNB#3726 | 5 | 5.10177210997019 | 0.00267525284156616 | 0.0147487717229903 |
| NR2C2#7182 | 5 | 5.43576848420681 | 0.00203186457041124 | 0.0118023305822681 |
| SUZ12#23512 | 4 | 6.68210412147505 | 0.00286620885512734 | 0.0155309736754511 |
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.
