Coexpression cluster:C60
From FANTOM5_SSTAR
Full id: C60_esophagus_tonsil_throat_tongue_uterus_cervix_cervical
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:0009913 | epidermal cell differentiation | 1.41601329514011e-06 |
| GO:0048730 | epidermis morphogenesis | 1.41601329514011e-06 |
| GO:0008544 | epidermis development | 2.01466657094069e-06 |
| GO:0007398 | ectoderm development | 2.24411353887132e-06 |
| GO:0048729 | tissue morphogenesis | 2.24411353887132e-06 |
| GO:0031424 | keratinization | 9.32934460505389e-06 |
| GO:0009888 | tissue development | 0.000105226369967371 |
| GO:0001533 | cornified envelope | 0.000132292126116635 |
| GO:0004252 | serine-type endopeptidase activity | 0.000135798780670284 |
| GO:0008236 | serine-type peptidase activity | 0.000226209905842224 |
| GO:0017171 | serine hydrolase activity | 0.000226209905842224 |
| GO:0030216 | keratinocyte differentiation | 0.000230958516534402 |
| GO:0030855 | epithelial cell differentiation | 0.000373043094348776 |
| GO:0009653 | anatomical structure morphogenesis | 0.000937413685950115 |
| GO:0048869 | cellular developmental process | 0.00112863934472534 |
| GO:0030154 | cell differentiation | 0.00112863934472534 |
| GO:0004175 | endopeptidase activity | 0.00112863934472534 |
| GO:0002009 | morphogenesis of an epithelium | 0.00146492407546216 |
| GO:0008233 | peptidase activity | 0.0022254787697735 |
| GO:0048856 | anatomical structure development | 0.0022254787697735 |
| GO:0006508 | proteolysis | 0.00302994733737321 |
| GO:0045177 | apical part of cell | 0.00302994733737321 |
| GO:0022404 | molting cycle process | 0.0034046175432698 |
| GO:0001942 | hair follicle development | 0.0034046175432698 |
| GO:0022405 | hair cycle process | 0.0034046175432698 |
| GO:0042633 | hair cycle | 0.0034046175432698 |
| GO:0042303 | molting cycle | 0.0034046175432698 |
| GO:0048513 | organ development | 0.00598753539904433 |
| GO:0018149 | peptide cross-linking | 0.00669221120975619 |
| GO:0048731 | system development | 0.00823891727396339 |
| GO:0031234 | extrinsic to internal side of plasma membrane | 0.0166626785626113 |
| GO:0005856 | cytoskeleton | 0.0187500937750301 |
| GO:0032502 | developmental process | 0.0208804400870822 |
| GO:0051665 | lipid raft localization | 0.0251823866931777 |
| GO:0031580 | lipid raft distribution | 0.0251823866931777 |
| GO:0001766 | lipid raft polarization | 0.0251823866931777 |
| GO:0045842 | positive regulation of mitotic metaphase/anaphase transition | 0.0251823866931777 |
| GO:0043163 | cell envelope organization and biogenesis | 0.0251823866931777 |
| GO:0045875 | negative regulation of sister chromatid cohesion | 0.0251823866931777 |
| GO:0042599 | lamellar body | 0.0251823866931777 |
| GO:0007063 | regulation of sister chromatid cohesion | 0.0251823866931777 |
| GO:0005882 | intermediate filament | 0.0289068344479616 |
| GO:0045111 | intermediate filament cytoskeleton | 0.0289068344479616 |
| GO:0016324 | apical plasma membrane | 0.0299409303102591 |
| GO:0004866 | endopeptidase inhibitor activity | 0.0303491206904742 |
| GO:0051293 | establishment of spindle localization | 0.0303491206904742 |
| GO:0035315 | hair cell differentiation | 0.0303491206904742 |
| GO:0008519 | ammonium transmembrane transporter activity | 0.0303491206904742 |
| GO:0051653 | spindle localization | 0.0303491206904742 |
| GO:0015696 | ammonium transport | 0.0303491206904742 |
| GO:0040001 | establishment of mitotic spindle localization | 0.0303491206904742 |
| GO:0030414 | protease inhibitor activity | 0.0334317251185693 |
| GO:0004024 | alcohol dehydrogenase activity, zinc-dependent | 0.0381949191725499 |
| GO:0031579 | lipid raft organization and biogenesis | 0.0381949191725499 |
| GO:0007275 | multicellular organismal development | 0.0429439998574265 |
| GO:0042640 | anagen | 0.0429439998574265 |
| GO:0006067 | ethanol metabolic process | 0.0429439998574265 |
| GO:0006069 | ethanol oxidation | 0.0429439998574265 |
| GO:0019003 | GDP binding | 0.0429439998574265 |
| GO:0004800 | thyroxine 5'-deiodinase activity | 0.0429439998574265 |
| GO:0030353 | fibroblast growth factor receptor antagonist activity | 0.0461216256646744 |
| GO:0005152 | interleukin-1 receptor antagonist activity | 0.0461216256646744 |
| GO:0004028 | 3-chloroallyl aldehyde dehydrogenase activity | 0.0461216256646744 |
| GO:0006451 | translational readthrough | 0.0461216256646744 |
| GO:0001514 | selenocysteine incorporation | 0.0461216256646744 |
| GO:0030506 | ankyrin binding | 0.0461216256646744 |
| GO:0009898 | internal side of plasma membrane | 0.0461216256646744 |
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>
| Ontology term | p-value | n |
|---|---|---|
| tongue | 1.98e-30 | 3 |
| gustatory system | 1.98e-30 | 3 |
| future tongue | 1.98e-30 | 3 |
| tonsil | 2.62e-23 | 1 |
| mucosa-associated lymphoid tissue | 2.62e-23 | 1 |
| lymphoid tissue | 2.62e-23 | 1 |
| tonsillar ring | 2.62e-23 | 1 |
| chordate pharynx | 1.47e-20 | 10 |
| pharyngeal region of foregut | 1.47e-20 | 10 |
| pharynx | 9.20e-19 | 11 |
| uterine cervix | 1.76e-15 | 6 |
| neck of organ | 1.76e-15 | 6 |
| throat | 1.65e-12 | 2 |
| open tracheal system trachea | 3.24e-12 | 2 |
| upper respiratory tract | 3.67e-11 | 19 |
| oral opening | 9.98e-10 | 22 |
| embryonic uterus | 1.34e-09 | 22 |
| esophagus | 8.31e-09 | 3 |
| esophageal region | 8.31e-09 | 3 |
| segment of respiratory tract | 6.76e-08 | 47 |
| mouth | 1.59e-07 | 29 |
| stomodeum | 1.59e-07 | 29 |
| adult organism | 5.84e-07 | 114 |
| respiratory tract | 6.51e-07 | 54 |
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 |
| MA0004.1 | 0.0238029 |
| MA0006.1 | 0.0259482 |
| MA0007.1 | 0.0493166 |
| MA0009.1 | 0.305743 |
| MA0014.1 | 1.99457e-10 |
| MA0017.1 | 0.0747859 |
| MA0019.1 | 0.979117 |
| MA0024.1 | 0.0700491 |
| MA0025.1 | 1.26446 |
| MA0027.1 | 0.996524 |
| MA0028.1 | 0.00252223 |
| MA0029.1 | 0.453364 |
| MA0030.1 | 0.0297556 |
| MA0031.1 | 0.0135351 |
| MA0038.1 | 0.0106419 |
| MA0040.1 | 0.010218 |
| MA0041.1 | 0.211004 |
| MA0042.1 | 0.0870869 |
| MA0043.1 | 0.493687 |
| MA0046.1 | 0.0218173 |
| MA0048.1 | 0.0174899 |
| MA0050.1 | 0.00895706 |
| MA0051.1 | 0.00111404 |
| MA0052.1 | 0.481293 |
| MA0055.1 | 4.25871 |
| MA0056.1 | 0 |
| MA0057.1 | 4.29434e-05 |
| MA0058.1 | 0.00702986 |
| MA0059.1 | 0.302168 |
| MA0060.1 | 6.67188e-05 |
| MA0061.1 | 0.000574899 |
| MA0063.1 | 0 |
| MA0066.1 | 2.64502 |
| MA0067.1 | 0.19765 |
| MA0068.1 | 0.00391198 |
| MA0069.1 | 3.31318 |
| MA0070.1 | 0.059971 |
| MA0071.1 | 1.36233 |
| MA0072.1 | 0.41465 |
| MA0073.1 | 0 |
| MA0074.1 | 0.832661 |
| MA0076.1 | 0.000145938 |
| MA0077.1 | 0.0537184 |
| MA0078.1 | 1.1015 |
| MA0081.1 | 0.087376 |
| MA0083.1 | 0.320001 |
| MA0084.1 | 0.125207 |
| MA0087.1 | 0.0563586 |
| MA0088.1 | 1.037e-08 |
| MA0089.1 | 0 |
| MA0090.1 | 0.160106 |
| MA0091.1 | 1.58003 |
| MA0092.1 | 4.98034 |
| MA0093.1 | 0.0103784 |
| MA0095.1 | 0 |
| MA0098.1 | 0 |
| MA0100.1 | 1.40208 |
| MA0101.1 | 0.000324099 |
| MA0103.1 | 5.08378 |
| MA0105.1 | 8.9164e-07 |
| MA0106.1 | 1.94243 |
| MA0107.1 | 0.000851843 |
| MA0108.2 | 0.768673 |
| MA0109.1 | 0 |
| MA0111.1 | 0.450524 |
| MA0113.1 | 0.105893 |
| MA0114.1 | 0.422637 |
| MA0115.1 | 0.320485 |
| MA0116.1 | 0.688195 |
| MA0117.1 | 0.598486 |
| MA0119.1 | 0.29972 |
| MA0122.1 | 1.68746 |
| MA0124.1 | 0.264417 |
| MA0125.1 | 0.0634691 |
| MA0130.1 | 0 |
| MA0131.1 | 0.00350521 |
| MA0132.1 | 0 |
| MA0133.1 | 0 |
| MA0135.1 | 0.0322034 |
| MA0136.1 | 0.318674 |
| MA0139.1 | 1.86264e-06 |
| MA0140.1 | 0.0429948 |
| MA0141.1 | 1.29779 |
| MA0142.1 | 0.202321 |
| MA0143.1 | 0.172973 |
| MA0144.1 | 0.0101367 |
| MA0145.1 | 0.410829 |
| MA0146.1 | 0.0254103 |
| MA0147.1 | 0.00431181 |
| MA0148.1 | 0.00451681 |
| MA0149.1 | 0.00115029 |
| MA0062.2 | 3.81895e-06 |
| MA0035.2 | 0.00146171 |
| MA0039.2 | 1.18987e-11 |
| MA0138.2 | 0.887189 |
| MA0002.2 | 1.56066 |
| MA0137.2 | 0.0319776 |
| MA0104.2 | 0.000283822 |
| MA0047.2 | 0.0726461 |
| MA0112.2 | 1.33572 |
| MA0065.2 | 1.20251 |
| MA0150.1 | 0.199165 |
| MA0151.1 | 0 |
| MA0152.1 | 0.00176391 |
| MA0153.1 | 0.305905 |
| MA0154.1 | 0.197865 |
| MA0155.1 | 1.44374e-06 |
| MA0156.1 | 0.416266 |
| MA0157.1 | 0.0430706 |
| MA0158.1 | 0 |
| MA0159.1 | 1.7162 |
| MA0160.1 | 0.278826 |
| MA0161.1 | 0 |
| MA0162.1 | 0 |
| MA0163.1 | 0 |
| MA0164.1 | 1.1574 |
| MA0080.2 | 0.0440458 |
| MA0018.2 | 0.000829628 |
| MA0099.2 | 0.281388 |
| MA0079.2 | 0 |
| MA0102.2 | 0.143408 |
| MA0258.1 | 1.9032 |
| MA0259.1 | 0.0396484 |
| 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
