Coexpression cluster:C188

Full id: C188_left_heart_tongue_skeletal_Skeletal_diaphragm_throat

Phase1 CAGE Peaks

Hg19::chr10:127569398..127569410,-	p5@DHX32
Hg19::chr10:77945410..77945435,+	p@chr10:77945410..77945435 +
Hg19::chr10:92725775..92725780,+	p@chr10:92725775..92725780 +
Hg19::chr12:114886372..114886399,-	p@chr12:114886372..114886399 -
Hg19::chr12:114886422..114886429,-	p@chr12:114886422..114886429 -
Hg19::chr12:3309741..3309748,+	p@chr12:3309741..3309748 +
Hg19::chr12:56080980..56080982,+	p@chr12:56080980..56080982 +
Hg19::chr12:70004523..70004545,-	p3@LRRC10
Hg19::chr12:70004575..70004590,-	p4@LRRC10
Hg19::chr12:94730118..94730123,-	p13@CCDC41
Hg19::chr13:111935498..111935509,+	p35@ARHGEF7
Hg19::chr13:24334287..24334315,-	p@chr13:24334287..24334315 -
Hg19::chr14:104408818..104408833,-	p2@ENST00000557640
Hg19::chr14:23852481..23852521,-	p@chr14:23852481..23852521 -
Hg19::chr14:23856796..23856821,+	p@chr14:23856796..23856821 +
Hg19::chr14:23862653..23862669,+	p@chr14:23862653..23862669 +
Hg19::chr14:23862685..23862696,+	p@chr14:23862685..23862696 +
Hg19::chr14:23862698..23862705,+	p@chr14:23862698..23862705 +
Hg19::chr14:23862866..23862886,+	p@chr14:23862866..23862886 +
Hg19::chr14:23862999..23863032,+	p@chr14:23862999..23863032 +
Hg19::chr14:23863078..23863082,+	p@chr14:23863078..23863082 +
Hg19::chr14:23863529..23863540,-	p@chr14:23863529..23863540 -
Hg19::chr14:23866230..23866266,-	p@chr14:23866230..23866266 -
Hg19::chr15:26640200..26640207,+	p3@ENST00000451579
Hg19::chr15:26640223..26640233,+	p2@ENST00000451579
Hg19::chr15:26640236..26640246,+	p1@ENST00000451579
Hg19::chr15:26640258..26640266,+	p4@ENST00000451579
Hg19::chr15:26640282..26640290,+	p5@ENST00000451579
Hg19::chr15:35082732..35082764,-	p@chr15:35082732..35082764 -
Hg19::chr15:44171970..44171983,-	p@chr15:44171970..44171983 -
Hg19::chr15:65042595..65042606,-	p@chr15:65042595..65042606 -
Hg19::chr15:65042618..65042632,-	p@chr15:65042618..65042632 -
Hg19::chr15:77964112..77964131,-	p@chr15:77964112..77964131 -
Hg19::chr15:77964143..77964150,-	p@chr15:77964143..77964150 -
Hg19::chr15:83474864..83474869,-	p4@FSD2
Hg19::chr17:45286706..45286723,+	p1@MYL4
Hg19::chr17:4806374..4806394,-	p1@CHRNE
Hg19::chr17:65440428..65440449,-	p@chr17:65440428..65440449 -
Hg19::chr18:21906552..21906584,+	p@chr18:21906552..21906584 +
Hg19::chr18:28807557..28807562,-	p@chr18:28807557..28807562 -
Hg19::chr19:3933460..3933476,+	p2@ITGB1BP3
Hg19::chr19:3933579..3933594,+	p1@ITGB1BP3
Hg19::chr1:109849612..109849651,-	p1@MYBPHL
Hg19::chr1:109849679..109849688,-	p3@MYBPHL
Hg19::chr1:11905799..11905806,-	p@chr1:11905799..11905806 -
Hg19::chr1:11905830..11905839,-	p@chr1:11905830..11905839 -
Hg19::chr1:11905915..11905921,-	p@chr1:11905915..11905921 -
Hg19::chr1:11906020..11906041,+	p@chr1:11906020..11906041 +
Hg19::chr1:11906044..11906050,-	p@chr1:11906044..11906050 -
Hg19::chr1:11907265..11907271,-	p9@NPPA
Hg19::chr1:11907318..11907327,-	p7@NPPA
Hg19::chr1:11907395..11907410,-	p4@NPPA
Hg19::chr1:11907408..11907415,+	p@chr1:11907408..11907415 +
Hg19::chr1:11907415..11907418,-	p15@NPPA
Hg19::chr1:11907440..11907450,+	p@chr1:11907440..11907450 +
Hg19::chr1:11907441..11907453,-	p3@NPPA
Hg19::chr1:11907474..11907481,-	p10@NPPA
Hg19::chr1:11907829..11907847,-	p1@NPPA
Hg19::chr1:11907940..11907947,-	p2@NPPA
Hg19::chr1:201342333..201342350,+	p@chr1:201342333..201342350 +
Hg19::chr1:233842857..233842870,-	p@chr1:233842857..233842870 -
Hg19::chr1:43676416..43676417,-	p@chr1:43676416..43676417 -
Hg19::chr2:149639329..149639360,-	p@chr2:149639329..149639360 -
Hg19::chr2:179655525..179655536,-	p@chr2:179655525..179655536 -
Hg19::chr2:27938986..27938991,+	p@chr2:27938986..27938991 +
Hg19::chr3:42744130..42744141,-	p4@HHATL
Hg19::chr4:111536685..111536696,-	p2@ENST00000513690
Hg19::chr4:13842523..13842533,-	p@chr4:13842523..13842533 -
Hg19::chr4:47833348..47833366,+	p@chr4:47833348..47833366 +
Hg19::chr4:65180453..65180460,-	p1@AX771276
Hg19::chr4:65366184..65366190,-	p@chr4:65366184..65366190 -
Hg19::chr4:8321842..8321846,+	p5@ENST00000509453
Hg19::chr5:102201562..102201573,+	p7@PAM
Hg19::chr5:102201574..102201598,+	p4@PAM
Hg19::chr5:102201610..102201628,+	p3@PAM
Hg19::chr5:172671810..172671816,-	p@chr5:172671810..172671816 -
Hg19::chr5:65736120..65736128,-	p@chr5:65736120..65736128 -
Hg19::chr5:65736176..65736194,-	p@chr5:65736176..65736194 -
Hg19::chr6:118869482..118869497,+	p2@PLN
Hg19::chr6:118869507..118869518,+	p3@PLN
Hg19::chr6:118880031..118880048,+	p5@PLN
Hg19::chr6:118880085..118880101,+	p4@PLN
Hg19::chr7:44178513..44178525,+	p@chr7:44178513..44178525 +
Hg19::chr7:44179972..44179982,-	p2@MYL7
Hg19::chr7:44180643..44180652,-	p3@MYL7
Hg19::chr7:44180921..44180937,-	p1@MYL7
Hg19::chr8:19540485..19540506,-	p20@CSGALNACT1
Hg19::chr8:52567465..52567476,-	p@chr8:52567465..52567476 -
Hg19::chr9:134165281..134165287,+	p3@PPAPDC3

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:0003012	muscle system process	0.00281616180046562
GO:0006936	muscle contraction	0.00281616180046562
GO:0004598	peptidylamidoglycolate lyase activity	0.0276698457553279
GO:0016459	myosin complex	0.0331984391158079
GO:0042030	ATPase inhibitor activity	0.0331984391158079
GO:0004504	peptidylglycine monooxygenase activity	0.0347557543960679
GO:0045822	negative regulation of heart contraction	0.0347557543960679
GO:0008015	blood circulation	0.0347557543960679
GO:0003013	circulatory system process	0.0347557543960679
GO:0003008	system process	0.0347557543960679
GO:0007517	muscle development	0.0347557543960679
GO:0002026	regulation of the force of heart contraction	0.0432322685227638
GO:0048738	cardiac muscle development	0.0432322685227638
GO:0055082	cellular chemical homeostasis	0.0432322685227638
GO:0006873	cellular ion homeostasis	0.0432322685227638
GO:0016842	amidine-lyase activity	0.0432322685227638
GO:0050801	ion homeostasis	0.0432322685227638
GO:0016715	oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced ascorbate as one donor, and incorporation of one atom of oxygen	0.0432322685227638
GO:0005246	calcium channel regulator activity	0.0432322685227638
GO:0065008	regulation of biological quality	0.0432322685227638
GO:0051924	regulation of calcium ion transport	0.0432322685227638
GO:0005790	smooth endoplasmic reticulum	0.0432322685227638
GO:0007271	synaptic transmission, cholinergic	0.0432322685227638
GO:0005892	nicotinic acetylcholine-gated receptor-channel complex	0.0443017627326371
GO:0015629	actin cytoskeleton	0.0443017627326371
GO:0048878	chemical homeostasis	0.0443017627326371
GO:0000146	microfilament motor activity	0.0443687273673285
GO:0016840	carbon-nitrogen lyase activity	0.0443687273673285
GO:0030048	actin filament-based movement	0.0456872947973257
GO:0043269	regulation of ion transport	0.046917065715841

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
non-terminally differentiated cell	3.48e-10	180
fibroblast	3.35e-07	75

Uber Anatomy

Ontology term	p-value	n
adult organism	6.81e-35	115
neural plate	7.65e-14	86
presumptive neural plate	7.65e-14	86
central nervous system	9.86e-14	82
multi-cellular organism	1.50e-13	659
neural tube	1.68e-13	57
neural rod	1.68e-13	57
future spinal cord	1.68e-13	57
neural keel	1.68e-13	57
regional part of nervous system	3.70e-13	94
nervous system	3.70e-13	94
neurectoderm	1.90e-12	90
anterior neural tube	8.43e-12	42
organism subdivision	1.16e-11	365
regional part of forebrain	2.44e-11	41
forebrain	2.44e-11	41
future forebrain	2.44e-11	41
regional part of brain	3.65e-11	59
brain	9.98e-11	69
future brain	9.98e-11	69
pre-chordal neural plate	5.66e-10	61
anatomical system	9.16e-10	625
anatomical group	1.64e-09	626
telencephalon	3.41e-08	34
gray matter	3.47e-08	34
brain grey matter	3.47e-08	34
ectoderm-derived structure	3.55e-08	169
multi-tissue structure	6.23e-08	347
regional part of telencephalon	7.49e-08	33
embryo	7.85e-08	612
head	1.25e-07	123
cerebral hemisphere	1.48e-07	32
ectoderm	1.54e-07	173
presumptive ectoderm	1.54e-07	173
anterior region of body	1.58e-07	129
craniocervical region	1.58e-07	129
epithelium	3.51e-07	309
cell layer	3.67e-07	312

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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