Coexpression cluster:C3159

Full id: C3159_cerebellum_parietal_hippocampus_temporal_insula_frontal_postcentral

Phase1 CAGE Peaks

Hg19::chr11:47616191..47616196,-	p7@C1QTNF4
Hg19::chr17:40834385..40834392,+	p6@CNTNAP1
Hg19::chr19:49941642..49941657,-	p6@SLC17A7

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:0015319	sodium:inorganic phosphate symporter activity	0.00706464146944542
GO:0015321	sodium-dependent phosphate transmembrane transporter activity	0.0164812521182351
GO:0005436	sodium:phosphate symporter activity	0.0164812521182351
GO:0015114	phosphate transmembrane transporter activity	0.0247167840339703
GO:0016493	C-C chemokine receptor activity	0.0275212931074951
GO:0019957	C-C chemokine binding	0.0275212931074951
GO:0001637	G-protein chemoattractant receptor activity	0.0275212931074951
GO:0004950	chemokine receptor activity	0.0275212931074951
GO:0019956	chemokine binding	0.0275212931074951
GO:0015296	anion:cation symporter activity	0.0275212931074951
GO:0005070	SH3/SH2 adaptor activity	0.0314253212205132
GO:0060090	molecular adaptor activity	0.0333704452132086
GO:0051480	cytosolic calcium ion homeostasis	0.0333704452132086
GO:0007204	elevation of cytosolic calcium ion concentration	0.0333704452132086
GO:0015103	inorganic anion transmembrane transporter activity	0.0333704452132086
GO:0030674	protein binding, bridging	0.0385573711424084
GO:0019955	cytokine binding	0.0385573711424084
GO:0015294	solute:cation symporter activity	0.0385573711424084
GO:0055074	calcium ion homeostasis	0.0385573711424084
GO:0006874	cellular calcium ion homeostasis	0.0385573711424084
GO:0006875	cellular metal ion homeostasis	0.0385573711424084
GO:0055065	metal ion homeostasis	0.0385573711424084
GO:0006817	phosphate transport	0.0385573711424084
GO:0042330	taxis	0.0385573711424084
GO:0006935	chemotaxis	0.0385573711424084
GO:0001653	peptide receptor activity	0.0385573711424084
GO:0008528	peptide receptor activity, G-protein coupled	0.0385573711424084
GO:0030005	cellular di-, tri-valent inorganic cation homeostasis	0.042863844773248
GO:0007626	locomotory behavior	0.042863844773248
GO:0055066	di-, tri-valent inorganic cation homeostasis	0.042863844773248
GO:0030003	cellular cation homeostasis	0.0431614103442473
GO:0055080	cation homeostasis	0.0431614103442473
GO:0042277	peptide binding	0.0431614103442473
GO:0008509	anion transmembrane transporter activity	0.0431614103442473
GO:0055082	cellular chemical homeostasis	0.0458795432522604
GO:0006873	cellular ion homeostasis	0.0458795432522604
GO:0015293	symporter activity	0.0458795432522604
GO:0015698	inorganic anion transport	0.0479694248685004
GO:0050801	ion homeostasis	0.0479878942586728

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>

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Uber Anatomy

Ontology term	p-value	n
regional part of nervous system	1.74e-83	53
regional part of brain	1.74e-83	53
neural tube	7.95e-79	56
neural rod	7.95e-79	56
future spinal cord	7.95e-79	56
neural keel	7.95e-79	56
brain	2.80e-73	68
future brain	2.80e-73	68
telencephalon	2.41e-66	34
regional part of forebrain	3.77e-66	41
forebrain	3.77e-66	41
anterior neural tube	3.77e-66	41
future forebrain	3.77e-66	41
regional part of cerebral cortex	7.87e-66	22
central nervous system	2.64e-65	81
cerebral hemisphere	8.89e-64	32
brain grey matter	9.48e-60	34
gray matter	9.48e-60	34
nervous system	2.13e-58	89
cerebral cortex	7.41e-58	25
pallium	7.41e-58	25
regional part of telencephalon	4.73e-57	32
neocortex	3.63e-55	20
neural plate	1.58e-52	82
presumptive neural plate	1.58e-52	82
neurectoderm	7.08e-50	86
adult organism	4.55e-46	114
pre-chordal neural plate	2.23e-43	61
ecto-epithelium	1.96e-40	104
structure with developmental contribution from neural crest	2.35e-33	132
ectoderm-derived structure	2.50e-28	171
ectoderm	2.50e-28	171
presumptive ectoderm	2.50e-28	171
gyrus	7.53e-26	6
organ system subdivision	4.34e-22	223
parietal lobe	1.28e-20	5
limbic system	5.11e-20	5
tube	1.40e-19	192
segmental subdivision of hindbrain	1.10e-17	12
hindbrain	1.10e-17	12
presumptive hindbrain	1.10e-17	12
regional part of metencephalon	7.53e-17	9
metencephalon	7.53e-17	9
future metencephalon	7.53e-17	9
segmental subdivision of nervous system	2.76e-16	13
anatomical conduit	1.32e-14	240
temporal lobe	1.61e-14	6
posterior neural tube	4.79e-14	15
chordal neural plate	4.79e-14	15
middle temporal gyrus	1.61e-13	2
Ammon's horn	1.71e-13	2
lobe parts of cerebral cortex	1.71e-13	2
hippocampal formation	1.71e-13	2
limbic lobe	1.71e-13	2
organ part	1.33e-12	218
occipital lobe	1.86e-11	5
anatomical cluster	5.04e-11	373
epithelium	2.72e-10	306
cell layer	3.87e-10	309
cerebellum	4.61e-10	6
rhombic lip	4.61e-10	6
multi-tissue structure	1.60e-09	342
frontal cortex	2.43e-09	3
brainstem	2.77e-09	6
pons	1.05e-08	3
postcentral gyrus	1.18e-07	1
insula	1.25e-07	1
nucleus accumbens	1.33e-07	1
ventral striatum	1.33e-07	1
paracentral gyrus	1.51e-07	1
occipital pole	1.83e-07	1
pole of cerebral hemisphere	1.83e-07	1
olfactory region	2.07e-07	1
primary subdivision of skull	2.07e-07	1
cranium	2.07e-07	1
neurocranium	2.07e-07	1
chondrocranium	2.07e-07	1
cartilaginous neurocranium	2.07e-07	1
head paraxial mesoderm	2.07e-07	1
corpus callosum	4.34e-07	1
central nervous system cell part cluster	4.34e-07	1
axon tract	4.34e-07	1
intercerebral commissure	4.34e-07	1
dorsal telencephalic commissure	4.34e-07	1
brain white matter	4.34e-07	1
brain commissure	4.34e-07	1
white matter	4.34e-07	1
nervous system commissure	4.34e-07	1
cerebral hemisphere white matter	4.34e-07	1
corpus striatum	5.38e-07	4
striatum	5.38e-07	4
ventral part of telencephalon	5.38e-07	4
future corpus striatum	5.38e-07	4

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.