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Coexpression cluster:C740

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Full id: C740_gastrointestinal_smallcell_small_nonsmall_neuroblastoma_temporal_somatostatinoma



Phase1 CAGE Peaks

Hg19::chr11:60466937..60466947,+p6@MS4A8B
Hg19::chr12:103351444..103351461,+p1@ASCL1
Hg19::chr12:103351694..103351704,+p6@ASCL1
Hg19::chr12:103352731..103352740,+p@chr12:103352731..103352740
+
Hg19::chr12:103353138..103353168,+p@chr12:103353138..103353168
+
Hg19::chr12:103353295..103353316,-p@chr12:103353295..103353316
-
Hg19::chr12:103353566..103353596,+p@chr12:103353566..103353596
+
Hg19::chr16:67219381..67219395,-p@chr16:67219381..67219395
-
Hg19::chr17:17421463..17421482,-p5@PEMT
Hg19::chr19:13743837..13743844,-p@chr19:13743837..13743844
-
Hg19::chr1:246383189..246383211,-p@chr1:246383189..246383211
-


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 IDGO nameFDR corrected p-value
GO:0060163subpallium neuron fate commitment0.00152646717464803
GO:0014017neuroblast fate commitment0.00152646717464803
GO:0014016neuroblast differentiation0.00152646717464803
GO:0007400neuroblast fate determination0.00152646717464803
GO:0060165regulation of timing of subpallium neuron differentiation0.00152646717464803
GO:0060164regulation of timing of neuron differentiation0.00152646717464803
GO:0004608phosphatidylethanolamine N-methyltransferase activity0.00152646717464803
GO:0021544subpallium development0.00400674043006203
GO:0048505regulation of timing of cell differentiation0.00427373064729577
GO:0040034regulation of development, heterochronic0.00427373064729577
GO:0006656phosphatidylcholine biosynthetic process0.00485636913446346
GO:0046470phosphatidylcholine metabolic process0.00623197345720764
GO:0021537telencephalon development0.0090387212307888
GO:0048663neuron fate commitment0.0106811816718229
GO:0008283cell proliferation0.0113477532025367
GO:0007405neuroblast proliferation0.0113477532025367
GO:0045664regulation of neuron differentiation0.0162956577304724
GO:0010001glial cell differentiation0.0162956577304724
GO:0001709cell fate determination0.0162956577304724
GO:0042063gliogenesis0.0182987399358394
GO:0001764neuron migration0.0182987399358394
GO:0030900forebrain development0.0213397299517958
GO:0046474glycerophospholipid biosynthetic process0.0213397299517958
GO:0008170N-methyltransferase activity0.0213397299517958
GO:0007219Notch signaling pathway0.0213397299517958
GO:0045165cell fate commitment0.0291189221451797
GO:0008757S-adenosylmethionine-dependent methyltransferase activity0.0339494755587485
GO:0008654phospholipid biosynthetic process0.0350147803328724
GO:0006650glycerophospholipid metabolic process0.0371047763843612
GO:0046467membrane lipid biosynthetic process0.0401153013644764
GO:0007389pattern specification process0.0425865120099492
GO:0007420brain development0.0462258483643068
GO:0045595regulation of cell differentiation0.0464306336375757
GO:0048666neuron development0.0481803368997648



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
central nervous system6.40e-4082
neural tube5.56e-3857
neural rod5.56e-3857
future spinal cord5.56e-3857
neural keel5.56e-3857
adult organism8.04e-38115
regional part of nervous system1.83e-3794
nervous system1.83e-3794
brain1.09e-3169
future brain1.09e-3169
regional part of forebrain1.87e-3041
forebrain1.87e-3041
future forebrain1.87e-3041
regional part of brain2.19e-3059
anterior neural tube2.84e-2942
neural plate3.73e-2986
presumptive neural plate3.73e-2986
neurectoderm1.20e-2790
gray matter1.90e-2534
brain grey matter1.90e-2534
telencephalon2.62e-2534
regional part of telencephalon1.05e-2433
cerebral hemisphere6.71e-2432
pre-chordal neural plate2.10e-2261
cerebral cortex1.72e-1925
pallium1.72e-1925
ectoderm-derived structure9.18e-19169
ectoderm3.33e-18173
presumptive ectoderm3.33e-18173
regional part of cerebral cortex6.88e-1822
anterior region of body1.44e-16129
craniocervical region1.44e-16129
neocortex1.53e-1620
head1.82e-15123
organ part1.33e-12219
tube1.01e-09194
posterior neural tube1.04e-0915
chordal neural plate1.04e-0915
organism subdivision5.90e-09365
multi-tissue structure1.49e-08347
segmental subdivision of nervous system4.47e-0813
epithelium6.14e-08309
cell layer1.48e-07312
nucleus of brain2.18e-079
neural nucleus2.18e-079
temporal lobe2.21e-077
segmental subdivision of hindbrain2.23e-0712
hindbrain2.23e-0712
presumptive hindbrain2.23e-0712
basal ganglion2.64e-079
nuclear complex of neuraxis2.64e-079
aggregate regional part of brain2.64e-079
collection of basal ganglia2.64e-079
cerebral subcortex2.64e-079


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.