Coexpression cluster:C308

Full id: C308_lung_Hepatocyte_liver_thyroid_heart_left_breast

Phase1 CAGE Peaks

Hg19::chr10:123886537..123886542,+	p6@TACC2
Hg19::chr10:6018826..6018842,+	p@chr10:6018826..6018842 +
Hg19::chr10:6018896..6018943,+	p@chr10:6018896..6018943 +
Hg19::chr10:81316736..81316741,-	p@chr10:81316736..81316741 -
Hg19::chr10:81374094..81374095,+	p2@AK309522
Hg19::chr11:60524339..60524341,+	p3@MS4A15
Hg19::chr11:60524471..60524476,+	p2@MS4A15
Hg19::chr12:40619482..40619487,-	p@chr12:40619482..40619487 -
Hg19::chr12:9268765..9268779,-	p8@A2M
Hg19::chr13:107279210..107279243,+	p@chr13:107279210..107279243 +
Hg19::chr15:49758548..49758563,+	p@chr15:49758548..49758563 +
Hg19::chr17:53800009..53800012,-	p11@TMEM100
Hg19::chr17:53809407..53809415,-	p6@TMEM100
Hg19::chr1:111833472..111833476,+	p1@CHIA
Hg19::chr1:27701307..27701322,-	p1@FCN3
Hg19::chr20:15177480..15177528,+	p2@MACROD2
Hg19::chr2:85886492..85886507,+	p@chr2:85886492..85886507 +
Hg19::chr2:85886640..85886647,+	p@chr2:85886640..85886647 +
Hg19::chr2:85886678..85886695,+	p@chr2:85886678..85886695 +
Hg19::chr2:85886680..85886695,-	p@chr2:85886680..85886695 -
Hg19::chr2:85886778..85886789,-	p@chr2:85886778..85886789 -
Hg19::chr2:85890569..85890576,-	p24@SFTPB
Hg19::chr2:85893765..85893801,-	p2@SFTPB
Hg19::chr2:85895542..85895549,-	p27@SFTPB
Hg19::chr3:150966924..150966933,-	p13@P2RY14
Hg19::chr3:157221357..157221365,-	p15@VEPH1
Hg19::chr3:157221380..157221399,-	p7@VEPH1
Hg19::chr5:1548521..1548536,+	p@chr5:1548521..1548536 +
Hg19::chr5:66787065..66787072,+	p@chr5:66787065..66787072 +
Hg19::chr6:11291949..11291963,+	p@chr6:11291949..11291963 +
Hg19::chr6:30905155..30905161,-	p@chr6:30905155..30905161 -
Hg19::chr6:30905176..30905181,-	p@chr6:30905176..30905181 -
Hg19::chr6:30905248..30905256,-	p@chr6:30905248..30905256 -
Hg19::chr6:32152003..32152016,-	p2@AGER
Hg19::chr6:32152020..32152040,-	p1@AGER
Hg19::chr6:32152064..32152075,-	p3@AGER
Hg19::chr6:41712177..41712188,-	p@chr6:41712177..41712188 -
Hg19::chr6:41712545..41712551,-	p@chr6:41712545..41712551 -
Hg19::chr8:69243711..69243722,-	p4@LOC286189

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:0001101	response to acid	0.0102944784231565
GO:0010383	cell wall polysaccharide metabolic process	0.0102944784231565
GO:0006037	cell wall chitin metabolic process	0.0102944784231565
GO:0010037	response to carbon dioxide	0.0102944784231565
GO:0005615	extracellular space	0.0102944784231565
GO:0045029	UDP-activated nucleotide receptor activity	0.0155385513714468
GO:0019959	interleukin-8 binding	0.0155385513714468
GO:0015065	uridine nucleotide receptor activity	0.0155385513714468
GO:0017114	wide-spectrum protease inhibitor activity	0.0155385513714468
GO:0050828	regulation of liquid surface tension	0.0209143579160127
GO:0008061	chitin binding	0.0209143579160127
GO:0044421	extracellular region part	0.0209143579160127
GO:0043120	tumor necrosis factor binding	0.0279299039569851
GO:0019966	interleukin-1 binding	0.0279299039569851
GO:0051384	response to glucocorticoid stimulus	0.0279299039569851
GO:0019958	C-X-C chemokine binding	0.0279299039569851
GO:0003796	lysozyme activity	0.0279299039569851
GO:0031960	response to corticosteroid stimulus	0.0279299039569851
GO:0005529	sugar binding	0.0279299039569851
GO:0006032	chitin catabolic process	0.0279299039569851
GO:0006046	N-acetylglucosamine catabolic process	0.0279299039569851
GO:0006043	glucosamine catabolic process	0.0279299039569851
GO:0046348	amino sugar catabolic process	0.0279299039569851
GO:0006030	chitin metabolic process	0.0279299039569851
GO:0004568	chitinase activity	0.0279299039569851
GO:0009620	response to fungus	0.0325618814526327
GO:0010382	cell wall metabolic process	0.0325618814526327
GO:0007047	cell wall organization and biogenesis	0.0325618814526327
GO:0044247	cellular polysaccharide catabolic process	0.0325618814526327
GO:0000272	polysaccharide catabolic process	0.0325618814526327
GO:0045229	external encapsulating structure organization and biogenesis	0.03300816015487
GO:0030246	carbohydrate binding	0.0366394871563165
GO:0008320	protein transmembrane transporter activity	0.0394364418177486
GO:0007585	respiratory gaseous exchange	0.0396389005349773
GO:0006044	N-acetylglucosamine metabolic process	0.0416574366362695
GO:0006041	glucosamine metabolic process	0.0416574366362695
GO:0048545	response to steroid hormone stimulus	0.0416574366362695
GO:0042221	response to chemical stimulus	0.0416574366362695
GO:0019956	chemokine binding	0.0416574366362695
GO:0019965	interleukin binding	0.0416574366362695
GO:0006040	amino sugar metabolic process	0.0416574366362695
GO:0051260	protein homooligomerization	0.0416574366362695
GO:0007584	response to nutrient	0.0416574366362695
GO:0010035	response to inorganic substance	0.0416574366362695
GO:0045028	purinergic nucleotide receptor activity, G-protein coupled	0.0416574366362695
GO:0001608	nucleotide receptor activity, G-protein coupled	0.0416574366362695
GO:0009605	response to external stimulus	0.0416574366362695
GO:0016502	nucleotide receptor activity	0.0416574366362695
GO:0001614	purinergic nucleotide receptor activity	0.0416574366362695

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
lower lobe of right lung	9.99e-30	1
right lung lobe	9.99e-30	1
lower lobe of lung	9.99e-30	1
lobe of lung	9.99e-30	1
right lung	9.99e-30	1
lung	2.26e-12	22
respiratory tube	2.26e-12	22
respiration organ	2.26e-12	22
pair of lungs	2.26e-12	22
lung primordium	2.26e-12	22
lung bud	2.26e-12	22
thoracic cavity element	3.01e-08	34
thoracic cavity	3.01e-08	34
thoracic segment organ	4.96e-08	35
epithelial bud	1.25e-07	37
respiratory primordium	1.90e-07	38
endoderm of foregut	1.90e-07	38
thyroid gland	6.77e-07	5
pharyngeal pouch	6.77e-07	5
thyroid diverticulum	6.77e-07	5
pharyngeal pouch 2	6.77e-07	5
thyroid primordium	6.77e-07	5

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.