Coexpression cluster:C1913

Full id: C1913_brain_parietal_insula_temporal_frontal_postcentral_paracentral

Phase1 CAGE Peaks

Hg19::chr2:73286210..73286217,-	p10@SFXN5
Hg19::chr3:196731256..196731267,-	p9@MFI2
Hg19::chr4:2060590..2060605,+	p@chr4:2060590..2060605 +
Hg19::chr4:3392202..3392212,+	p@chr4:3392202..3392212 +
Hg19::chr6:34497272..34497283,-	p@chr6:34497272..34497283 -

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:0006826	iron ion transport	0.000179782242216466
GO:0000041	transition metal ion transport	0.00029011852432864
GO:0015674	di-, tri-valent inorganic cation transport	0.00114076113215925
GO:0005506	iron ion binding	0.00355545855679128
GO:0030001	metal ion transport	0.00523173083580828
GO:0006812	cation transport	0.00675828032833279
GO:0006811	ion transport	0.0149587772796448
GO:0008199	ferric iron binding	0.0176890209421288
GO:0055072	iron ion homeostasis	0.0214120650479812
GO:0006879	cellular iron ion homeostasis	0.0214120650479812
GO:0048503	GPI anchor binding	0.0437522451688784
GO:0030005	cellular di-, tri-valent inorganic cation homeostasis	0.0481393143616867
GO:0055066	di-, tri-valent inorganic cation homeostasis	0.0481393143616867
GO:0030003	cellular cation homeostasis	0.0481393143616867
GO:0055080	cation homeostasis	0.0481393143616867
GO:0055082	cellular chemical homeostasis	0.0481393143616867
GO:0006873	cellular ion homeostasis	0.0481393143616867
GO:0006810	transport	0.0481393143616867
GO:0035091	phosphoinositide binding	0.0481393143616867
GO:0051234	establishment of localization	0.0481393143616867
GO:0050801	ion homeostasis	0.0484630294109158

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
neural tube	3.04e-70	57
neural rod	3.04e-70	57
future spinal cord	3.04e-70	57
neural keel	3.04e-70	57
regional part of brain	2.91e-61	59
central nervous system	1.50e-59	82
brain	1.50e-58	69
future brain	1.50e-58	69
cerebral hemisphere	1.49e-56	32
telencephalon	1.69e-56	34
gray matter	2.69e-56	34
brain grey matter	2.69e-56	34
regional part of forebrain	8.65e-56	41
forebrain	8.65e-56	41
future forebrain	8.65e-56	41
anterior neural tube	3.03e-54	42
regional part of telencephalon	3.75e-54	33
neural plate	1.80e-53	86
presumptive neural plate	1.80e-53	86
regional part of nervous system	1.25e-51	94
nervous system	1.25e-51	94
neurectoderm	1.77e-50	90
regional part of cerebral cortex	9.47e-48	22
cerebral cortex	3.24e-45	25
pallium	3.24e-45	25
neocortex	1.41e-43	20
pre-chordal neural plate	7.09e-39	61
adult organism	5.38e-37	115
head	5.52e-32	123
anterior region of body	7.05e-30	129
craniocervical region	7.05e-30	129
ectoderm-derived structure	1.44e-27	169
ectoderm	1.36e-26	173
presumptive ectoderm	1.36e-26	173
posterior neural tube	2.02e-16	15
chordal neural plate	2.02e-16	15
tube	4.00e-16	194
gyrus	3.42e-15	6
temporal lobe	6.45e-15	7
segmental subdivision of hindbrain	2.16e-14	12
hindbrain	2.16e-14	12
presumptive hindbrain	2.16e-14	12
segmental subdivision of nervous system	3.91e-13	13
basal ganglion	6.02e-13	9
nuclear complex of neuraxis	6.02e-13	9
aggregate regional part of brain	6.02e-13	9
collection of basal ganglia	6.02e-13	9
cerebral subcortex	6.02e-13	9
parietal lobe	1.25e-12	5
limbic system	1.44e-12	5
occipital lobe	1.70e-12	5
nucleus of brain	1.74e-12	9
neural nucleus	1.74e-12	9
anatomical conduit	3.60e-11	241
corpus striatum	1.49e-10	4
striatum	1.49e-10	4
ventral part of telencephalon	1.49e-10	4
future corpus striatum	1.49e-10	4
brainstem	4.96e-10	8
epithelium	9.74e-10	309
cell layer	1.63e-09	312
organ part	3.77e-09	219
regional part of metencephalon	4.67e-09	9
metencephalon	4.67e-09	9
future metencephalon	4.67e-09	9
telencephalic nucleus	8.64e-09	7
organism subdivision	8.95e-09	365
anatomical cluster	1.25e-08	286
middle temporal gyrus	2.44e-08	3
caudate-putamen	2.88e-08	3
dorsal striatum	2.88e-08	3
pons	8.48e-08	3
organ	9.24e-08	511
medulla oblongata	1.61e-07	3
myelencephalon	1.61e-07	3
future myelencephalon	1.61e-07	3
multi-tissue structure	4.90e-07	347

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)
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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.