Coexpression cluster:C375

Full id: C375_optic_Cardiac_occipital_hippocampus_amygdala_heart_vagina

Phase1 CAGE Peaks

Hg19::chr10:23728870..23728914,-	p@chr10:23728870..23728914 -
Hg19::chr14:64194979..64194990,-	p5@SGPP1
Hg19::chr15:28878244..28878278,+	p3@HERC2P9
Hg19::chr15:59203645..59203660,+	p1@ENST00000460205
Hg19::chr18:74691000..74691005,-	p@chr18:74691000..74691005 -
Hg19::chr18:77772838..77772849,+	p1@ENST00000496399
Hg19::chr19:22877694..22877711,-	p@chr19:22877694..22877711 -
Hg19::chr19:24186022..24186033,-	p@chr19:24186022..24186033 -
Hg19::chr19:36369966..36369979,+	p@chr19:36369966..36369979 +
Hg19::chr1:6663197..6663214,+	p@chr1:6663197..6663214 +
Hg19::chr20:3052264..3052270,+	p1@OXT
Hg19::chr20:3065362..3065375,-	p1@AVP
Hg19::chr20:56423415..56423424,+	p@chr20:56423415..56423424 +
Hg19::chr2:133013437..133013446,-	p@chr2:133013437..133013446 -
Hg19::chr4:41216423..41216432,+	p@chr4:41216423..41216432 +
Hg19::chr4:79860452..79860464,+	p@chr4:79860452..79860464 +
Hg19::chr5:149681987..149681999,+	p@chr5:149681987..149681999 +
Hg19::chr6:3692134..3692138,-	p@chr6:3692134..3692138 -
Hg19::chr7:100231306..100231312,+	p@chr7:100231306..100231312 +
Hg19::chr7:143208421..143208425,-	p1@OR10AC1P
Hg19::chr7:148638615..148638633,+	p1@RNY5
Hg19::chr7:22158177..22158186,-	p@chr7:22158177..22158186 -
Hg19::chr8:22411813..22411825,+	p55@SORBS3
Hg19::chr8:56755058..56755080,-	p@chr8:56755058..56755080 -
Hg19::chr9:102693980..102693990,+	p@chr9:102693980..102693990 +
Hg19::chr9:139740358..139740365,+	p@chr9:139740358..139740365 +
Hg19::chr9:79186715..79186726,+	p@chr9:79186715..79186726 +
Hg19::chrX:39548044..39548047,+	p@chrX:39548044..39548047 +
Hg19::chrY:10035184..10035200,+	p@chrY:10035184..10035200 +

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:0031895	V1B vasopressin receptor binding	6.82805122742316e-07
GO:0031855	oxytocin receptor binding	6.82805122742316e-07
GO:0050891	body fluid osmoregulation	6.82805122742316e-07
GO:0031893	vasopressin receptor binding	1.02416748363524e-06
GO:0005185	neurohypophyseal hormone activity	1.02416748363524e-06
GO:0031894	V1A vasopressin receptor binding	1.02416748363524e-06
GO:0018987	osmoregulation	8.19173195646287e-06
GO:0005184	neuropeptide hormone activity	0.000135030968425998
GO:0001664	G-protein-coupled receptor binding	0.00121415974217814
GO:0050878	regulation of body fluid levels	0.00157986801149862
GO:0042392	sphingosine-1-phosphate phosphatase activity	0.00210868843860719
GO:0030816	positive regulation of cAMP metabolic process	0.00226678572039262
GO:0006670	sphingosine metabolic process	0.00226678572039262
GO:0006667	sphinganine metabolic process	0.00226678572039262
GO:0030804	positive regulation of cyclic nucleotide biosynthetic process	0.00226678572039262
GO:0045981	positive regulation of nucleotide metabolic process	0.00226678572039262
GO:0030819	positive regulation of cAMP biosynthetic process	0.00226678572039262
GO:0006668	sphinganine-1-phosphate metabolic process	0.00226678572039262
GO:0030810	positive regulation of nucleotide biosynthetic process	0.00226678572039262
GO:0030801	positive regulation of cyclic nucleotide metabolic process	0.00226678572039262
GO:0005179	hormone activity	0.00226678572039262
GO:0051496	positive regulation of stress fiber formation	0.00289919055618893
GO:0051495	positive regulation of cytoskeleton organization and biogenesis	0.00289919055618893
GO:0032233	positive regulation of actin filament bundle formation	0.00289919055618893
GO:0048878	chemical homeostasis	0.00368039417526195
GO:0030817	regulation of cAMP biosynthetic process	0.0039985303853693
GO:0003091	renal water homeostasis	0.0039985303853693
GO:0030146	diuresis	0.0039985303853693
GO:0017166	vinculin binding	0.0039985303853693
GO:0030802	regulation of cyclic nucleotide biosynthetic process	0.00409243273910375
GO:0051492	regulation of stress fiber formation	0.00409243273910375
GO:0030808	regulation of nucleotide biosynthetic process	0.00409243273910375
GO:0032231	regulation of actin filament bundle formation	0.00409243273910375
GO:0030814	regulation of cAMP metabolic process	0.00409243273910375
GO:0030799	regulation of cyclic nucleotide metabolic process	0.00438718911543101
GO:0043149	stress fiber formation	0.00438718911543101
GO:0030104	water homeostasis	0.00438718911543101
GO:0007567	parturition	0.00475659573642449
GO:0043410	positive regulation of MAPKKK cascade	0.00475659573642449
GO:0003014	renal system process	0.00521716056497323
GO:0042592	homeostatic process	0.00552056104825354
GO:0006140	regulation of nucleotide metabolic process	0.00552056104825354
GO:0006833	water transport	0.00579633313918826
GO:0042044	fluid transport	0.00579633313918826
GO:0051130	positive regulation of cellular component organization and biogenesis	0.00721225905871929
GO:0043408	regulation of MAPKKK cascade	0.00755909920924628
GO:0042310	vasoconstriction	0.00789113665704299
GO:0007589	fluid secretion	0.00869181253526654
GO:0051017	actin filament bundle formation	0.00880731442979931
GO:0006171	cAMP biosynthetic process	0.00880731442979931
GO:0046058	cAMP metabolic process	0.00999665889986511
GO:0005925	focal adhesion	0.015011611682781
GO:0000267	cell fraction	0.015011611682781
GO:0046519	sphingoid metabolic process	0.015011611682781
GO:0005924	cell-substrate adherens junction	0.015435742176374
GO:0065008	regulation of biological quality	0.015435742176374
GO:0048522	positive regulation of cellular process	0.015435742176374
GO:0009190	cyclic nucleotide biosynthetic process	0.015435742176374
GO:0030055	cell-matrix junction	0.015435742176374
GO:0007015	actin filament organization	0.015435742176374
GO:0007588	excretion	0.015435742176374
GO:0035150	regulation of tube size	0.015435742176374
GO:0050880	regulation of blood vessel size	0.015435742176374
GO:0003018	vascular process in circulatory system	0.0155556468794977
GO:0005102	receptor binding	0.0162484472590287
GO:0048518	positive regulation of biological process	0.0167667441072256
GO:0009187	cyclic nucleotide metabolic process	0.0172727118713187
GO:0005912	adherens junction	0.0183769505943518
GO:0051493	regulation of cytoskeleton organization and biogenesis	0.0185114408611819
GO:0033043	regulation of organelle organization and biogenesis	0.0185114408611819
GO:0006950	response to stress	0.020506881207144
GO:0006665	sphingolipid metabolic process	0.0218422042088823
GO:0009891	positive regulation of biosynthetic process	0.0221746544257607
GO:0035239	tube morphogenesis	0.0258463519980026
GO:0005200	structural constituent of cytoskeleton	0.0258463519980026
GO:0016323	basolateral plasma membrane	0.0258463519980026
GO:0051128	regulation of cellular component organization and biogenesis	0.0299926897886429
GO:0031589	cell-substrate adhesion	0.0304923716384611
GO:0007165	signal transduction	0.0306487966665124
GO:0035295	tube development	0.033750160244109
GO:0000122	negative regulation of transcription from RNA polymerase II promoter	0.0361665252615426
GO:0007154	cell communication	0.0369427395620263
GO:0000165	MAPKKK cascade	0.0416447144289407
GO:0009967	positive regulation of signal transduction	0.0419663592318712
GO:0008015	blood circulation	0.0428525175398149
GO:0003013	circulatory system process	0.0428525175398149

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	4.38e-77	114
neural tube	9.25e-27	56
neural rod	9.25e-27	56
future spinal cord	9.25e-27	56
neural keel	9.25e-27	56
regional part of nervous system	1.38e-24	53
regional part of brain	1.38e-24	53
regional part of forebrain	1.01e-22	41
forebrain	1.01e-22	41
anterior neural tube	1.01e-22	41
future forebrain	1.01e-22	41
brain grey matter	2.83e-22	34
gray matter	2.83e-22	34
neural plate	3.93e-22	82
presumptive neural plate	3.93e-22	82
neurectoderm	1.34e-20	86
brain	8.37e-20	68
future brain	8.37e-20	68
telencephalon	1.11e-19	34
central nervous system	2.38e-19	81
regional part of telencephalon	2.64e-19	32
nervous system	8.32e-18	89
cerebral hemisphere	3.02e-17	32
pre-chordal neural plate	7.09e-17	61
ecto-epithelium	2.32e-16	104
structure with developmental contribution from neural crest	3.69e-15	132
organ system subdivision	5.66e-15	223
regional part of cerebral cortex	8.66e-15	22
cerebral cortex	1.28e-12	25
pallium	1.28e-12	25
neural nucleus	2.02e-12	9
nucleus of brain	2.02e-12	9
neocortex	6.81e-12	20
anatomical cluster	3.71e-11	373
anatomical conduit	2.25e-10	240
ectoderm-derived structure	1.21e-09	171
ectoderm	1.21e-09	171
presumptive ectoderm	1.21e-09	171
tube	1.46e-09	192
basal ganglion	2.46e-09	9
nuclear complex of neuraxis	2.46e-09	9
aggregate regional part of brain	2.46e-09	9
collection of basal ganglia	2.46e-09	9
cerebral subcortex	2.46e-09	9
multi-tissue structure	4.45e-09	342
telencephalic nucleus	5.82e-09	7
organ	1.22e-08	503
embryonic structure	4.38e-08	564
brainstem	4.39e-08	6
organ part	4.89e-08	218
germ layer	7.83e-08	560
germ layer / neural crest	7.83e-08	560
embryonic tissue	7.83e-08	560
presumptive structure	7.83e-08	560
germ layer / neural crest derived structure	7.83e-08	560
epiblast (generic)	7.83e-08	560
embryo	1.55e-07	592
male genital duct	3.13e-07	3
internal male genitalia	3.13e-07	3
developing anatomical structure	3.46e-07	581
cardiac chamber	3.67e-07	3
multi-cellular organism	8.35e-07	656

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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(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF	#promoters	Enrichment	p-value	q-value
POLR3G#10622	1	74.9805273833671	0.0132522794323847	0.046880561312835

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.