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Coexpression cluster:C195

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Full id: C195_Small_Gingival_Bronchial_Smooth_mesenchymal_Urothelial_Tracheal



Phase1 CAGE Peaks

Hg19::chr10:3941138..3941145,-p@chr10:3941138..3941145
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Hg19::chr11:127965642..127965659,+p@chr11:127965642..127965659
+
Hg19::chr11:127965706..127965714,+p@chr11:127965706..127965714
+
Hg19::chr11:127965736..127965745,+p@chr11:127965736..127965745
+
Hg19::chr11:127965839..127965844,+p@chr11:127965839..127965844
+
Hg19::chr11:127965855..127965866,+p@chr11:127965855..127965866
+
Hg19::chr11:127965869..127965894,+p@chr11:127965869..127965894
+
Hg19::chr11:127965904..127965913,+p@chr11:127965904..127965913
+
Hg19::chr11:127965924..127965935,+p@chr11:127965924..127965935
+
Hg19::chr11:73663222..73663226,+p@chr11:73663222..73663226
+
Hg19::chr11:7927293..7927308,-p4@LOC283299
Hg19::chr11:7927797..7927817,-p1@LOC283299
Hg19::chr12:10513712..10513716,-p1@ENST00000535911
Hg19::chr12:28186158..28186183,-p@chr12:28186158..28186183
-
Hg19::chr14:51963969..51963974,+p@chr14:51963969..51963974
+
Hg19::chr14:51972517..51972536,+p@chr14:51972517..51972536
+
Hg19::chr14:52026212..52026215,+p@chr14:52026212..52026215
+
Hg19::chr14:87730650..87730656,-p@chr14:87730650..87730656
-
Hg19::chr15:71740021..71740037,+p@chr15:71740021..71740037
+
Hg19::chr16:85750444..85750466,-p@chr16:85750444..85750466
-
Hg19::chr17:38653561..38653607,-p@chr17:38653561..38653607
-
Hg19::chr17:56603082..56603097,+p@chr17:56603082..56603097
+
Hg19::chr17:56603128..56603137,+p@chr17:56603128..56603137
+
Hg19::chr17:60858418..60858439,-p@chr17:60858418..60858439
-
Hg19::chr1:107541218..107541228,-p@chr1:107541218..107541228
-
Hg19::chr1:209591333..209591335,-p@chr1:209591333..209591335
-
Hg19::chr1:232854914..232854917,-p@chr1:232854914..232854917
-
Hg19::chr1:8135925..8135929,-p@chr1:8135925..8135929
-
Hg19::chr1:94160495..94160512,-p@chr1:94160495..94160512
-
Hg19::chr21:38233478..38233483,+p@chr21:38233478..38233483
+
Hg19::chr21:44939980..44939983,+p@chr21:44939980..44939983
+
Hg19::chr2:163101439..163101452,+p@chr2:163101439..163101452
+
Hg19::chr2:213770576..213770587,+p@chr2:213770576..213770587
+
Hg19::chr2:231649545..231649550,-p@chr2:231649545..231649550
-
Hg19::chr2:56007040..56007060,+p@chr2:56007040..56007060
+
Hg19::chr2:73299315..73299328,-p11@SFXN5
Hg19::chr3:101909113..101909129,+p@chr3:101909113..101909129
+
Hg19::chr3:101909187..101909198,+p@chr3:101909187..101909198
+
Hg19::chr3:156502182..156502186,+p@chr3:156502182..156502186
+
Hg19::chr3:189655696..189655699,+p@chr3:189655696..189655699
+
Hg19::chr3:45476797..45476808,+p@chr3:45476797..45476808
+
Hg19::chr3:45476828..45476831,+p@chr3:45476828..45476831
+
Hg19::chr3:45476837..45476843,+p@chr3:45476837..45476843
+
Hg19::chr3:48602467..48602469,-p14@COL7A1
Hg19::chr4:108783895..108783898,-p@chr4:108783895..108783898
-
Hg19::chr4:108909370..108909373,+p@chr4:108909370..108909373
+
Hg19::chr4:157695866..157695871,+p@chr4:157695866..157695871
+
Hg19::chr4:166604070..166604073,+p@chr4:166604070..166604073
+
Hg19::chr5:111445067..111445085,-p@chr5:111445067..111445085
-
Hg19::chr5:148293809..148293816,+p@chr5:148293809..148293816
+
Hg19::chr5:52584337..52584344,-p@chr5:52584337..52584344
-
Hg19::chr5:59064137..59064148,-p58@PDE4D
Hg19::chr5:59064162..59064173,-p72@PDE4D
Hg19::chr5:59064199..59064230,-p28@PDE4D
Hg19::chr6:10355646..10355663,-p@chr6:10355646..10355663
-
Hg19::chr6:11791877..11791883,+p@chr6:11791877..11791883
+
Hg19::chr6:12324677..12324683,+p@chr6:12324677..12324683
+
Hg19::chr6:128922463..128922497,+p@chr6:128922463..128922497
+
Hg19::chr6:22222867..22222878,-p@chr6:22222867..22222878
-
Hg19::chr7:106060323..106060328,-p@chr7:106060323..106060328
-
Hg19::chr7:134328418..134328421,+p@chr7:134328418..134328421
+
Hg19::chr7:158196067..158196075,-p@chr7:158196067..158196075
-
Hg19::chr7:55163202..55163244,+p@chr7:55163202..55163244
+
Hg19::chr7:55263885..55263894,+p@chr7:55263885..55263894
+
Hg19::chr8:113686674..113686685,-p@chr8:113686674..113686685
-
Hg19::chr8:113686693..113686717,-p@chr8:113686693..113686717
-
Hg19::chr8:113686738..113686743,-p@chr8:113686738..113686743
-
Hg19::chr8:113686752..113686753,-p@chr8:113686752..113686753
-
Hg19::chr8:113686755..113686782,-p@chr8:113686755..113686782
-
Hg19::chr8:113686792..113686795,-p@chr8:113686792..113686795
-
Hg19::chr8:29414184..29414190,+p@chr8:29414184..29414190
+
Hg19::chr8:29448825..29448836,-p@chr8:29448825..29448836
-
Hg19::chr8:29449835..29449837,+p@chr8:29449835..29449837
+
Hg19::chr9:20224892..20224905,-p@chr9:20224892..20224905
-
Hg19::chr9:21468453..21468457,-p@chr9:21468453..21468457
-
Hg19::chr9:21499276..21499289,-p@chr9:21499276..21499289
-
Hg19::chr9:21499446..21499456,-p@chr9:21499446..21499456
-
Hg19::chr9:21505384..21505411,-p@chr9:21505384..21505411
-
Hg19::chr9:21543873..21543886,-p@chr9:21543873..21543886
-
Hg19::chr9:21549553..21549570,-p@chr9:21549553..21549570
-
Hg19::chr9:21549612..21549619,-p@chr9:21549612..21549619
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Hg19::chr9:21559689..21559703,-p3@MIR31HG
Hg19::chr9:21559717..21559731,-p4@MIR31HG
Hg19::chr9:21559788..21559806,-p2@MIR31HG
Hg19::chr9:21559809..21559877,-p1@MIR31HG
Hg19::chrX:48369279..48369286,+p9@PORCN
Hg19::chrY:7671916..7671924,-p@chrY:7671916..7671924
-


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:0005590collagen type VII0.0114211703756034
GO:00041153',5'-cyclic-AMP phosphodiesterase activity0.0342514094620916
GO:0030934anchoring collagen0.0342514094620916
GO:0005737cytoplasm0.0456463678366286
GO:0005626insoluble fraction0.0456463678366286



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>disease_data<br>


Uber Anatomy
Ontology termp-valuen
anatomical system1.44e-17625
anatomical group3.64e-17626
multi-cellular organism5.10e-17659
multi-tissue structure1.34e-15347
organism subdivision6.75e-15365
multilaminar epithelium2.28e-1382
epithelium3.35e-13309
cell layer9.36e-13312
embryonic structure4.49e-12605
developing anatomical structure4.49e-12605
mesenchyme4.82e-12238
entire embryonic mesenchyme4.82e-12238
germ layer5.75e-12604
embryonic tissue5.75e-12604
presumptive structure5.75e-12604
epiblast (generic)5.75e-12604
embryo7.41e-12612
trunk8.81e-11216
artery1.01e-1042
arterial blood vessel1.01e-1042
arterial system1.01e-1042
somite2.01e-1083
paraxial mesoderm2.01e-1083
presomitic mesoderm2.01e-1083
presumptive segmental plate2.01e-1083
trunk paraxial mesoderm2.01e-1083
presumptive paraxial mesoderm2.01e-1083
surface structure2.41e-1095
trunk mesenchyme2.45e-10143
endoderm-derived structure4.78e-10169
endoderm4.78e-10169
presumptive endoderm4.78e-10169
anatomical cluster5.84e-10286
muscle tissue1.12e-0963
musculature1.12e-0963
musculature of body1.12e-0963
unilaminar epithelium1.36e-09138
systemic artery1.39e-0933
systemic arterial system1.39e-0933
dermomyotome1.58e-0970
skeletal muscle tissue1.60e-0961
striated muscle tissue1.60e-0961
myotome1.60e-0961
anatomical conduit5.83e-09241
reproductive structure1.02e-0859
reproductive system1.02e-0859
female organism1.10e-0841
vasculature1.12e-0879
vascular system1.12e-0879
blood vessel1.88e-0860
epithelial tube open at both ends1.88e-0860
blood vasculature1.88e-0860
vascular cord1.88e-0860
splanchnic layer of lateral plate mesoderm3.21e-0884
respiratory system8.62e-0872
female reproductive organ9.32e-0837
female reproductive system9.32e-0837
epithelial tube1.04e-07118
organ1.91e-07511
vessel2.25e-0769
reproductive organ2.37e-0748
primordium2.93e-07168
mesoderm5.01e-07448
mesoderm-derived structure5.01e-07448
presumptive mesoderm5.01e-07448
digestive system6.05e-07155
digestive tract6.05e-07155
primitive gut6.05e-07155
organ part6.50e-07219
Disease
Ontology termp-valuen
female reproductive organ cancer2.10e-0827
reproductive organ cancer4.31e-0829
ovarian cancer4.00e-0714


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
FOS#2353282.895893662632681.2138110998422e-076.98838023464274e-06
JUN#3725213.020338080908773.74013144524048e-060.000122334979019565
NR3C1#2908152.581555746753970.0006172269906107990.00511648302820869
SMARCA4#659747.20762773829370.002410605745787930.0135903510652818
STAT3#6774323.869228504700416.10156636443326e-127.85747829266394e-10



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