Coexpression cluster:C2826

Full id: C2826_Mast_medial_frontal_occipital_parietal_brain_olfactory

Phase1 CAGE Peaks

Hg19::chr5:67586544..67586558,+	p7@PIK3R1
Hg19::chr5:67588391..67588411,+	p13@PIK3R1
Hg19::chr5:67588419..67588430,+	p29@PIK3R1
Hg19::chr6:147453079..147453129,-	p1@ENST00000431143 p1@uc003qlv.2

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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p.value	FDR	nGenes	nPathway	Name
0.00304771246409304	0.049893154907868	1	87	ErbB signaling pathway (KEGG):04012
0.00273243186435928	0.049893154907868	1	78	Phosphatidylinositol signaling system (KEGG):04070
0.00182162124290619	0.049893154907868	1	52	mTOR signaling pathway (KEGG):04150
0.00301268128634485	0.049893154907868	1	86	Apoptosis (KEGG):04210
0.00266236950886289	0.049893154907868	1	76	VEGF signaling pathway (KEGG):04370
0.00357318013031598	0.049893154907868	1	102	Toll-like receptor signaling pathway (KEGG):04620
0.00378336719680516	0.049893154907868	1	108	T cell receptor signaling pathway (KEGG):04660
0.00262733833111469	0.049893154907868	1	75	B cell receptor signaling pathway (KEGG):04662
0.00276746304210748	0.049893154907868	1	79	Fc epsilon RI signaling pathway (KEGG):04664
0.00332796188607861	0.049893154907868	1	95	Fc gamma R-mediated phagocytosis (KEGG):04666
0.00304771246409304	0.049893154907868	1	87	Progesterone-mediated oocyte maturation (KEGG):04914
0.0016814965319134	0.049893154907868	1	48	Type II diabetes mellitus (KEGG):04930
0.00147130946542423	0.049893154907868	1	42	Aldosterone-regulated sodium reabsorption (KEGG):04960
0.00154137182092062	0.049893154907868	1	44	Carbohydrate digestion and absorption (KEGG):04973
0.00248721362012191	0.049893154907868	1	71	Bacterial invasion of epithelial cells (KEGG):05100
0.00364324248581237	0.049893154907868	1	104	Chagas disease (American trypanosomiasis) (KEGG):05142
0.00371330484130877	0.049893154907868	1	106	Amoebiasis (KEGG):05146
0.00217193302038814	0.049893154907868	1	62	Colorectal cancer (KEGG):05210
0.00245218244237371	0.049893154907868	1	70	Renal cell carcinoma (KEGG):05211
0.00245218244237371	0.049893154907868	1	70	Pancreatic cancer (KEGG):05212
0.00182162124290619	0.049893154907868	1	52	Endometrial cancer (KEGG):05213
0.00227702655363273	0.049893154907868	1	65	Glioma (KEGG):05214
0.00311777481958943	0.049893154907868	1	89	Prostate cancer (KEGG):05215
0.00248721362012191	0.049893154907868	1	71	Melanoma (KEGG):05218
0.0025572759756183	0.049893154907868	1	73	Chronic myeloid leukemia (KEGG):05220
0.00203180830939536	0.049893154907868	1	58	Acute myeloid leukemia (KEGG):05221
0.00297765010859665	0.049893154907868	1	85	Small cell lung cancer (KEGG):05222
0.00189168359840258	0.049893154907868	1	54	Non-small cell lung cancer (KEGG):05223
0.00241715126462552	0.049893154907868	1	69	IL-5 Signaling Pathway (Wikipathways):WP127
0.0025572759756183	0.049893154907868	1	73	AMPK signaling (Wikipathways):WP1403
0.00304771246409304	0.049893154907868	1	87	MicroRNAs in cardiomyocyte hypertrophy (Wikipathways):WP1544
0.00154137182092062	0.049893154907868	1	44	IL-7 Signaling Pathway (Wikipathways):WP205
0.000840748265956701	0.049893154907868	1	24	IL-9 Signaling Pathway (Wikipathways):WP22
0.00241715126462552	0.049893154907868	1	69	Alpha6-Beta4 Integrin Signaling Pathway (Wikipathways):WP244
0.00297765010859665	0.049893154907868	1	85	Apoptosis (Wikipathways):WP254
0.00357318013031598	0.049893154907868	1	102	IL-3 Signaling Pathway (Wikipathways):WP286
0.00241715126462552	0.049893154907868	1	69	Kit Receptor Signaling Pathway (Wikipathways):WP304
0.00346808659707139	0.049893154907868	1	99	IL-6 Signaling Pathway (Wikipathways):WP364
0.00224199537588454	0.049893154907868	1	64	IL-4 signaling Pathway (Wikipathways):WP395
0.00269740068661108	0.049893154907868	1	77	IL-2 Signaling Pathway (Wikipathways):WP49
0.00301268128634485	0.049893154907868	1	86	Delta-Notch Signaling Pathway (Wikipathways):WP61
0.00357318013031598	0.049893154907868	1	102	Toll-like receptor signaling pathway (Wikipathways):WP75
0.00378336719680516	0.049893154907868	1	108	Signaling by Insulin receptor (Reactome):REACT_498
0.00182162124290619	0.049893154907868	1	52	Signaling by EGFR (Reactome):REACT_9417
0.00227702655363273	0.049893154907868	1	65	Signaling by PDGF (Reactome):REACT_16888
0.00157640299866882	0.049893154907868	1	45	Signaling by FGFR (Reactome):REACT_9470
0.00161143417641701	0.049893154907868	1	46	Interactions of the immunoglobulin superfamily (IgSF) member proteins (Reactome):REACT_23853
0.0025572759756183	0.049893154907868	1	73	Notch up reg. targets (Netpath):NetPath_3

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:0035030	phosphoinositide 3-kinase complex, class IA	0.00167785234899329
GO:0043559	insulin binding	0.00167785234899329
GO:0043125	ErbB-3 class receptor binding	0.00209731543624161
GO:0043560	insulin receptor substrate binding	0.00209731543624161
GO:0048009	insulin-like growth factor receptor signaling pathway	0.00215723873441994
GO:0017046	peptide hormone binding	0.00215723873441994
GO:0035014	phosphoinositide 3-kinase regulator activity	0.00215723873441994
GO:0005159	insulin-like growth factor receptor binding	0.00230704697986577
GO:0019903	protein phosphatase binding	0.00272651006711409
GO:0005545	phosphatidylinositol binding	0.00272651006711409
GO:0005942	phosphoinositide 3-kinase complex	0.00272651006711409
GO:0019902	phosphatase binding	0.00272651006711409
GO:0005158	insulin receptor binding	0.00272651006711409
GO:0046854	phosphoinositide phosphorylation	0.00272651006711409
GO:0042562	hormone binding	0.00272651006711409
GO:0046834	lipid phosphorylation	0.00272651006711409
GO:0008286	insulin receptor signaling pathway	0.00315831030398737
GO:0030258	lipid modification	0.00484712900820283
GO:0030384	phosphoinositide metabolic process	0.00706464146944542
GO:0006650	glycerophospholipid metabolic process	0.00806967082134867
GO:0032403	protein complex binding	0.00806967082134867
GO:0019207	kinase regulator activity	0.00930445393532642
GO:0044445	cytosolic part	0.0138605194047272
GO:0042277	peptide binding	0.0138745482705214
GO:0007169	transmembrane receptor protein tyrosine kinase signaling pathway	0.0138745482705214
GO:0006644	phospholipid metabolic process	0.0138745482705214
GO:0035091	phosphoinositide binding	0.0155978125776783
GO:0006643	membrane lipid metabolic process	0.0162991371045062
GO:0007167	enzyme linked receptor protein signaling pathway	0.0167785234899329
GO:0019899	enzyme binding	0.0167785234899329
GO:0005125	cytokine activity	0.0167785234899329
GO:0005543	phospholipid binding	0.0175125838926175
GO:0005829	cytosol	0.0285728385313857
GO:0008289	lipid binding	0.0285728385313857
GO:0044255	cellular lipid metabolic process	0.036816874400767
GO:0006629	lipid metabolic process	0.0440902311707681
GO:0005102	receptor binding	0.0470252131325957

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
adult organism	6.16e-53	115
neural tube	3.71e-38	57
neural rod	3.71e-38	57
future spinal cord	3.71e-38	57
neural keel	3.71e-38	57
anterior neural tube	3.52e-34	42
central nervous system	6.55e-34	82
regional part of forebrain	1.86e-33	41
forebrain	1.86e-33	41
future forebrain	1.86e-33	41
regional part of nervous system	2.02e-33	94
nervous system	2.02e-33	94
regional part of brain	3.82e-31	59
neural plate	6.94e-29	86
presumptive neural plate	6.94e-29	86
brain	9.98e-29	69
future brain	9.98e-29	69
neurectoderm	1.03e-27	90
gray matter	2.52e-27	34
brain grey matter	2.52e-27	34
telencephalon	3.65e-27	34
cerebral hemisphere	3.01e-26	32
regional part of telencephalon	3.96e-26	33
pre-chordal neural plate	1.56e-24	61
ectoderm-derived structure	1.18e-22	169
ectoderm	3.24e-22	173
presumptive ectoderm	3.24e-22	173
regional part of cerebral cortex	4.42e-22	22
neocortex	3.70e-20	20
anterior region of body	5.55e-20	129
craniocervical region	5.55e-20	129
head	7.24e-20	123
cerebral cortex	1.09e-19	25
pallium	1.09e-19	25
organ part	2.58e-11	219
basal ganglion	2.47e-09	9
nuclear complex of neuraxis	2.47e-09	9
aggregate regional part of brain	2.47e-09	9
collection of basal ganglia	2.47e-09	9
cerebral subcortex	2.47e-09	9
nucleus of brain	4.29e-09	9
neural nucleus	4.29e-09	9
organ	1.45e-08	511
gyrus	6.85e-08	6
diencephalon	1.09e-07	7
future diencephalon	1.09e-07	7
brainstem	1.35e-07	8
organism subdivision	1.43e-07	365
anatomical conduit	2.29e-07	241
telencephalic nucleus	2.40e-07	7
temporal lobe	3.43e-07	7
tube	4.71e-07	194
multi-cellular organism	7.42e-07	659

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.