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Coexpression cluster:C2217

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Full id: C2217_mature_skeletal_neuroepithelioma_neuroectodermal_argyrophil_breast_left



Phase1 CAGE Peaks

Hg19::chr12:54982378..54982417,-p2@PPP1R1A
Hg19::chr12:54982420..54982461,-p1@PPP1R1A
Hg19::chr12:54982586..54982628,-p3@PPP1R1A
Hg19::chr12:54983026..54983043,-p@chr12:54983026..54983043
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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


No GOStat results

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>


Cell Type
Ontology termp-valuen
fat cell1.12e-0715
Uber Anatomy
Ontology termp-valuen
adult organism1.81e-47115
neural tube2.17e-3057
neural rod2.17e-3057
future spinal cord2.17e-3057
neural keel2.17e-3057
central nervous system5.71e-3082
neurectoderm3.76e-2890
regional part of nervous system1.41e-2794
nervous system1.41e-2794
regional part of brain3.69e-2659
neural plate9.86e-2686
presumptive neural plate9.86e-2686
brain5.70e-2469
future brain5.70e-2469
anterior neural tube1.82e-2342
regional part of forebrain1.19e-2241
forebrain1.19e-2241
future forebrain1.19e-2241
telencephalon1.16e-2134
gray matter1.60e-2134
brain grey matter1.60e-2134
regional part of telencephalon4.99e-2133
cerebral hemisphere1.25e-2032
pre-chordal neural plate8.63e-1861
ectoderm2.97e-17173
presumptive ectoderm2.97e-17173
cerebral cortex1.08e-1525
pallium1.08e-1525
ectoderm-derived structure1.58e-15169
regional part of cerebral cortex2.44e-1522
neocortex3.80e-1420
anterior region of body8.43e-14129
craniocervical region8.43e-14129
head2.68e-13123
multi-cellular organism3.30e-09659
organism subdivision3.63e-09365
organ3.82e-09511
tube7.03e-09194
anatomical conduit2.08e-08241
embryo2.31e-08612
multi-tissue structure4.54e-08347
posterior neural tube4.70e-0815
chordal neural plate4.70e-0815
basal ganglion1.15e-079
nuclear complex of neuraxis1.15e-079
aggregate regional part of brain1.15e-079
collection of basal ganglia1.15e-079
cerebral subcortex1.15e-079
organ part1.57e-07219
nucleus of brain2.60e-079
neural nucleus2.60e-079
segmental subdivision of nervous system8.78e-0713


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)

{{{tfbs_overrepresentation_jaspar}}}



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.