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Coexpression cluster:C676

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Full id: C676_serous_CD8_CD4_Natural_gall_cerebellum_Basophils



Phase1 CAGE Peaks

Hg19::chr10:73819242..73819255,-p@chr10:73819242..73819255
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Hg19::chr10:73821340..73821373,-p@chr10:73821340..73821373
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Hg19::chr10:73822482..73822493,-p@chr10:73822482..73822493
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Hg19::chr10:73822528..73822532,-p@chr10:73822528..73822532
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Hg19::chr10:73823970..73824002,-p@chr10:73823970..73824002
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Hg19::chr10:73848088..73848099,-p9@SPOCK2
Hg19::chr10:73848196..73848207,-p6@SPOCK2
Hg19::chr10:73848209..73848220,-p7@SPOCK2
Hg19::chr10:73848236..73848250,-p2@SPOCK2
Hg19::chr10:73848262..73848315,-p1@SPOCK2
Hg19::chr10:73848333..73848352,-p3@SPOCK2
Hg19::chr10:73848353..73848364,-p5@SPOCK2


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>


Uber Anatomy
Ontology termp-valuen
adult organism5.95e-49114
neural tube4.87e-4556
neural rod4.87e-4556
future spinal cord4.87e-4556
neural keel4.87e-4556
regional part of nervous system6.23e-4253
regional part of brain6.23e-4253
regional part of forebrain9.86e-3541
forebrain9.86e-3541
anterior neural tube9.86e-3541
future forebrain9.86e-3541
central nervous system6.42e-3381
brain6.01e-3168
future brain6.01e-3168
brain grey matter1.59e-2934
gray matter1.59e-2934
telencephalon2.31e-2934
cerebral hemisphere6.17e-2832
regional part of telencephalon1.94e-2732
nervous system2.09e-2789
neural plate4.15e-2782
presumptive neural plate4.15e-2782
neurectoderm7.11e-2586
cerebral cortex2.27e-2125
pallium2.27e-2125
regional part of cerebral cortex1.86e-2022
pre-chordal neural plate2.99e-2061
neocortex1.51e-1820
ecto-epithelium6.91e-18104
structure with developmental contribution from neural crest9.70e-14132
tube2.45e-12192
posterior neural tube3.24e-1115
chordal neural plate3.24e-1115
organ system subdivision1.43e-10223
neural nucleus1.38e-099
nucleus of brain1.38e-099
basal ganglion3.25e-099
nuclear complex of neuraxis3.25e-099
aggregate regional part of brain3.25e-099
collection of basal ganglia3.25e-099
cerebral subcortex3.25e-099
nephron tubule epithelium1.89e-0810
segmental subdivision of hindbrain2.14e-0812
hindbrain2.14e-0812
presumptive hindbrain2.14e-0812
gyrus8.89e-086
ectoderm-derived structure8.93e-08171
ectoderm8.93e-08171
presumptive ectoderm8.93e-08171
anatomical conduit1.34e-07240
telencephalic nucleus1.53e-077
brainstem1.60e-076
segmental subdivision of nervous system1.66e-0713
diencephalon9.97e-077
future diencephalon9.97e-077


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


(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF#promotersEnrichmentp-valueq-value
SUZ12#23512520.88157537960952.22261777511182e-067.96322393876169e-05



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.