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Coexpression cluster:C305

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Full id: C305_heart_skeletal_smooth_left_bladder_penis_esophagus



Phase1 CAGE Peaks

Hg19::chr19:4518464..4518482,-p@chr19:4518464..4518482
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Hg19::chr22:31489256..31489265,+p16@SMTN
Hg19::chr2:220283091..220283108,+p1@DES
Hg19::chr2:220284823..220284842,+p4@DES
Hg19::chr2:220284844..220284884,-p@chr2:220284844..220284884
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Hg19::chr2:220284966..220284986,+p5@DES
Hg19::chr2:220284988..220285027,+p6@DES
Hg19::chr2:220285210..220285239,+p@chr2:220285210..220285239
+
Hg19::chr2:220285256..220285296,+p@chr2:220285256..220285296
+
Hg19::chr2:220285302..220285343,+p@chr2:220285302..220285343
+
Hg19::chr2:220285541..220285559,+p@chr2:220285541..220285559
+
Hg19::chr2:220285575..220285610,-p@chr2:220285575..220285610
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Hg19::chr2:220285599..220285647,+p@chr2:220285599..220285647
+
Hg19::chr2:220285612..220285644,-p@chr2:220285612..220285644
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Hg19::chr2:220285651..220285664,-p@chr2:220285651..220285664
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Hg19::chr2:220286055..220286065,+p@chr2:220286055..220286065
+
Hg19::chr2:220286085..220286098,+p@chr2:220286085..220286098
+
Hg19::chr2:220286112..220286136,+p@chr2:220286112..220286136
+
Hg19::chr2:220286147..220286161,+p@chr2:220286147..220286161
+
Hg19::chr2:220286168..220286188,+p@chr2:220286168..220286188
+
Hg19::chr2:220286193..220286205,+p@chr2:220286193..220286205
+
Hg19::chr2:220290377..220290387,+p13@DES
Hg19::chr2:220290396..220290425,+p3@DES
Hg19::chr2:220290408..220290419,-p@chr2:220290408..220290419
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Hg19::chr2:220290421..220290473,-p@chr2:220290421..220290473
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Hg19::chr2:220290664..220290727,+p@chr2:220290664..220290727
+
Hg19::chr2:220290729..220290776,+p@chr2:220290729..220290776
+
Hg19::chr2:220290781..220290803,+p@chr2:220290781..220290803
+
Hg19::chr2:220290804..220290823,+p@chr2:220290804..220290823
+
Hg19::chr2:220290830..220290837,+p@chr2:220290830..220290837
+
Hg19::chr2:220290845..220290851,+p@chr2:220290845..220290851
+
Hg19::chr2:220290992..220291014,+p@chr2:220290992..220291014
+
Hg19::chr2:220291020..220291028,+p@chr2:220291020..220291028
+
Hg19::chr2:220291067..220291084,+p@chr2:220291067..220291084
+
Hg19::chr2:220291089..220291100,+p@chr2:220291089..220291100
+
Hg19::chr2:220291155..220291166,+p@chr2:220291155..220291166
+
Hg19::chr2:220291179..220291201,+p@chr2:220291179..220291201
+
Hg19::chr2:220291235..220291266,+p@chr2:220291235..220291266
+
Hg19::chr2:220291318..220291369,-p1@ENST00000431827
Hg19::chr2:220291449..220291458,-p@chr2:220291449..220291458
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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

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

GO IDGO nameFDR corrected p-value
GO:0003012muscle system process0.000644808923970424
GO:0006936muscle contraction0.000644808923970424
GO:0045098type III intermediate filament0.00215860867718525
GO:0030018Z disc0.00917206142502409
GO:0042383sarcolemma0.00917206142502409
GO:0031674I band0.00917206142502409
GO:0005626insoluble fraction0.00924872907672752
GO:0005856cytoskeleton0.0103543064344058
GO:0003008system process0.0103543064344058
GO:0006939smooth muscle contraction0.0103543064344058
GO:0008016regulation of heart contraction0.0103543064344058
GO:0008307structural constituent of muscle0.0103543064344058
GO:0003015heart process0.0103543064344058
GO:0060047heart contraction0.0103543064344058
GO:0030017sarcomere0.0103543064344058
GO:0030016myofibril0.0107175356890367
GO:0044449contractile fiber part0.0114181724757752
GO:0043292contractile fiber0.0115020737324959
GO:0005200structural constituent of cytoskeleton0.014467704270575
GO:0043232intracellular non-membrane-bound organelle0.0193433145647536
GO:0043228non-membrane-bound organelle0.0193433145647536
GO:0008015blood circulation0.0224722302354123
GO:0003013circulatory system process0.0224722302354123
GO:0007517muscle development0.0231469802933627
GO:0032501multicellular organismal process0.0278394694516853
GO:0045111intermediate filament cytoskeleton0.0282042822928545
GO:0005882intermediate filament0.0282042822928545
GO:0051239regulation of multicellular organismal process0.0319025563823224
GO:0015629actin cytoskeleton0.0329060306007821
GO:0003779actin binding0.046970160060924



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>

Uber Anatomy
Ontology termp-valuen
adult organism8.79e-32115
multi-cellular organism3.18e-11659
central nervous system7.82e-1182
organism subdivision6.78e-10365
regional part of nervous system1.23e-0994
nervous system1.23e-0994
multi-tissue structure3.30e-09347
neural plate2.15e-0886
presumptive neural plate2.15e-0886
regional part of brain2.72e-0859
brain3.44e-0869
future brain3.44e-0869
organ3.78e-08511
tissue6.08e-08787
neural tube1.08e-0757
neural rod1.08e-0757
future spinal cord1.08e-0757
neural keel1.08e-0757
neurectoderm1.59e-0790
embryo4.65e-07612
anatomical system9.94e-07625


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

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

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

TF#promotersEnrichmentp-valueq-value
TAL1#688653.733577084680030.01042636578680.0386923645811608



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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