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Coexpression cluster:C1882

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Full id: C1882_endometrial_cervical_kidney_pineal_carcinoid_rectal_medulla



Phase1 CAGE Peaks

Hg19::chr2:165701498..165701506,+p@chr2:165701498..165701506
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Hg19::chr2:165701514..165701517,+p@chr2:165701514..165701517
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Hg19::chr2:165701544..165701556,+p@chr2:165701544..165701556
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Hg19::chr2:165701558..165701569,+p@chr2:165701558..165701569
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Hg19::chr2:165701580..165701589,+p@chr2:165701580..165701589
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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><br>uberon_data<br><br>


Uber Anatomy
Ontology termp-valuen
neural tube6.01e-4857
neural rod6.01e-4857
future spinal cord6.01e-4857
neural keel6.01e-4857
neural plate1.79e-3986
presumptive neural plate1.79e-3986
neurectoderm2.83e-3790
regional part of brain3.11e-3759
central nervous system1.20e-3682
adult organism1.25e-34115
regional part of nervous system1.72e-3294
nervous system1.72e-3294
brain2.22e-3269
future brain2.22e-3269
regional part of forebrain2.47e-3241
forebrain2.47e-3241
future forebrain2.47e-3241
anterior neural tube1.99e-3142
pre-chordal neural plate8.45e-2661
gray matter2.57e-2434
brain grey matter2.57e-2434
telencephalon4.02e-2434
regional part of telencephalon2.11e-2233
head4.45e-21123
cerebral hemisphere2.36e-2032
anterior region of body1.13e-19129
craniocervical region1.13e-19129
regional part of cerebral cortex6.62e-1822
posterior neural tube1.18e-1715
chordal neural plate1.18e-1715
brainstem3.55e-178
ectoderm-derived structure5.55e-16169
cerebral cortex1.76e-1525
pallium1.76e-1525
ectoderm2.17e-15173
presumptive ectoderm2.17e-15173
neocortex5.25e-1420
tube2.34e-11194
gyrus3.08e-116
segmental subdivision of hindbrain5.28e-1112
hindbrain5.28e-1112
presumptive hindbrain5.28e-1112
nucleus of brain8.52e-119
neural nucleus8.52e-119
diencephalon4.31e-107
future diencephalon4.31e-107
medulla oblongata4.41e-103
myelencephalon4.41e-103
future myelencephalon4.41e-103
segmental subdivision of nervous system4.51e-1013
spinal cord1.20e-093
limbic system2.25e-095
brainstem nucleus3.80e-093
organ part4.78e-09219
pons7.04e-093
anatomical conduit1.06e-08241
basal ganglion9.82e-089
nuclear complex of neuraxis9.82e-089
aggregate regional part of brain9.82e-089
collection of basal ganglia9.82e-089
cerebral subcortex9.82e-089
epithelium1.92e-07309
cell layer2.82e-07312
gland of diencephalon3.23e-074
neuroendocrine gland3.23e-074
pineal body3.39e-072
regional part of epithalamus3.39e-072
secretory circumventricular organ3.39e-072
regional part of diencephalon3.39e-072
circumventricular organ3.39e-072
epithalamus3.39e-072
anatomical cluster4.89e-07286
frontal cortex5.62e-072
Ammon's horn8.46e-072
lobe parts of cerebral cortex8.46e-072
hippocampal formation8.46e-072
limbic lobe8.46e-072
organ9.60e-07511
organism subdivision9.90e-07365


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.