Coexpression cluster:C3673

Full id: C3673_neuroblastoma_brain_small_cerebellum_occipital_temporal_duodenum

Phase1 CAGE Peaks

Hg19::chr17:71161200..71161204,+	p3@SSTR2
Hg19::chr1:244215672..244215678,+	p@chr1:244215672..244215678 +
Hg19::chr20:30555945..30555984,+	p1@XKR7

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

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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

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GO ID	GO name	FDR corrected p-value
GO:0004994	somatostatin receptor activity	0.0164831929442676
GO:0007193	G-protein signaling, adenylate cyclase inhibiting pathway	0.0219727381701648
GO:0030165	PDZ domain binding	0.0219727381701648
GO:0007584	response to nutrient	0.0269051121052268
GO:0008188	neuropeptide receptor activity	0.0269051121052268
GO:0042923	neuropeptide binding	0.0269051121052268
GO:0031667	response to nutrient levels	0.0270486413620883
GO:0009991	response to extracellular stimulus	0.0270486413620883
GO:0007188	G-protein signaling, coupled to cAMP nucleotide second messenger	0.0270486413620883
GO:0019933	cAMP-mediated signaling	0.0270486413620883
GO:0007586	digestion	0.0270486413620883
GO:0007187	G-protein signaling, coupled to cyclic nucleotide second messenger	0.0270486413620883
GO:0019935	cyclic-nucleotide-mediated signaling	0.0270486413620883
GO:0019904	protein domain specific binding	0.0270486413620883
GO:0030594	neurotransmitter receptor activity	0.0270486413620883
GO:0042165	neurotransmitter binding	0.0270486413620883
GO:0001653	peptide receptor activity	0.0270486413620883
GO:0008528	peptide receptor activity, G-protein coupled	0.0270486413620883
GO:0007218	neuropeptide signaling pathway	0.0290792892439112
GO:0042277	peptide binding	0.0341825969867575
GO:0008285	negative regulation of cell proliferation	0.0352067492146173
GO:0019932	second-messenger-mediated signaling	0.0400035891161309

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>

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Cell Type

Ontology term	p-value	n
neuronal stem cell	1.19e-11	8

Uber Anatomy

Ontology term	p-value	n
nervous system	1.74e-68	89
central nervous system	4.74e-66	81
neural tube	2.20e-55	56
neural rod	2.20e-55	56
future spinal cord	2.20e-55	56
neural keel	2.20e-55	56
regional part of nervous system	4.54e-55	53
regional part of brain	4.54e-55	53
brain	3.79e-50	68
future brain	3.79e-50	68
neural plate	1.69e-43	82
presumptive neural plate	1.69e-43	82
telencephalon	2.83e-43	34
regional part of forebrain	1.29e-42	41
forebrain	1.29e-42	41
anterior neural tube	1.29e-42	41
future forebrain	1.29e-42	41
neurectoderm	4.33e-41	86
brain grey matter	2.74e-39	34
gray matter	2.74e-39	34
cerebral hemisphere	4.14e-38	32
regional part of telencephalon	5.10e-38	32
regional part of cerebral cortex	4.74e-36	22
pre-chordal neural plate	6.65e-35	61
ectoderm-derived structure	9.86e-35	171
ectoderm	9.86e-35	171
presumptive ectoderm	9.86e-35	171
ecto-epithelium	1.56e-32	104
cerebral cortex	2.02e-31	25
pallium	2.02e-31	25
neocortex	2.91e-30	20
structure with developmental contribution from neural crest	2.87e-27	132
organ system subdivision	4.13e-27	223
adult organism	7.11e-27	114
limbic system	3.61e-18	5
anatomical cluster	2.50e-15	373
basal ganglion	1.42e-13	9
nuclear complex of neuraxis	1.42e-13	9
aggregate regional part of brain	1.42e-13	9
collection of basal ganglia	1.42e-13	9
cerebral subcortex	1.42e-13	9
posterior neural tube	1.74e-13	15
chordal neural plate	1.74e-13	15
segmental subdivision of hindbrain	3.09e-13	12
hindbrain	3.09e-13	12
presumptive hindbrain	3.09e-13	12
temporal lobe	5.80e-13	6
segmental subdivision of nervous system	3.84e-12	13
tube	9.95e-12	192
parietal lobe	1.84e-11	5
regional part of metencephalon	1.00e-09	9
metencephalon	1.00e-09	9
future metencephalon	1.00e-09	9
gyrus	2.11e-09	6
neural nucleus	2.54e-09	9
nucleus of brain	2.54e-09	9
brainstem	6.53e-09	6
organ part	1.24e-08	218
pineal body	1.29e-08	2
regional part of epithalamus	1.29e-08	2
secretory circumventricular organ	1.29e-08	2
circumventricular organ	1.29e-08	2
epithalamus	1.29e-08	2
corpus striatum	2.21e-08	4
striatum	2.21e-08	4
ventral part of telencephalon	2.21e-08	4
future corpus striatum	2.21e-08	4
amygdala	2.32e-08	2
Ammon's horn	3.98e-08	2
lobe parts of cerebral cortex	3.98e-08	2
hippocampal formation	3.98e-08	2
limbic lobe	3.98e-08	2
telencephalic nucleus	4.67e-08	7
anatomical conduit	7.03e-08	240
meninx	9.26e-08	2
membrane organ	9.26e-08	2
meningeal cluster	9.26e-08	2
sympathetic nervous system	4.45e-07	5
autonomic nervous system	4.45e-07	5
multi-tissue structure	5.37e-07	342
developing anatomical structure	7.38e-07	581

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

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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

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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

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This analysis result is provided for C0 - C305 clusters.