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Coexpression cluster:C1497

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Full id: C1497_amniotic_Mallassezderived_Prostate_Urothelial_papillotubular_Gingival_Amniotic



Phase1 CAGE Peaks

  Short description
Hg19::chr2:161056746..161056753,- p6@ITGB6
Hg19::chr2:161056762..161056799,- p1@ITGB6
Hg19::chr2:161056802..161056815,- p2@ITGB6
Hg19::chr2:161056820..161056825,- p4@ITGB6
Hg19::chr3:111314186..111314204,- p1@ZBED2
Hg19::chr3:111314230..111314241,- p2@ZBED2


Enriched pathways on this co-expression clusterSummary:
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.
Analyst: Emmanuel Dimont

link to source dataset
data


No results for this coexpression

Enriched Gene Ontology terms on this co-expression clusterSummary: 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.
Analyst: Erik Arner

link to source dataset
data


GO IDGO nameFDR corrected p-value
GO:0005178integrin binding0.0397168392103577
GO:0008305integrin complex0.0397168392103577
GO:0007229integrin-mediated signaling pathway0.0397168392103577
GO:0007160cell-matrix adhesion0.0397168392103577
GO:0032403protein complex binding0.0397168392103577
GO:0031589cell-substrate adhesion0.0397168392103577
GO:0043235receptor complex0.0397168392103577



Enriched sample ontology terms on this co-expression clusterSummary: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. Analyst: Hideya Kawaji

links to source dataset

cell_data
uberon_data
disease_data


Uber Anatomy
Ontology termp-valuen
endoderm-derived structure1.56e-28160
endoderm1.56e-28160
presumptive endoderm1.56e-28160
digestive system1.16e-19145
digestive tract1.16e-19145
primitive gut1.16e-19145
respiratory system4.06e-1674
urinary system structure7.75e-1647
subdivision of digestive tract2.52e-15118
renal system2.54e-1548
extraembryonic membrane7.65e-1514
membranous layer7.65e-1514
endo-epithelium8.67e-1482
respiratory tract1.70e-1254
thoracic cavity element5.47e-1234
thoracic cavity5.47e-1234
epithelial bud1.02e-1137
thoracic segment organ1.81e-1135
chorion8.65e-117
organ part2.38e-10218
epithelial fold5.51e-1047
trunk region element5.61e-10101
organ9.13e-10503
anatomical space1.05e-0995
orifice2.03e-0936
mucosa6.10e-0920
nephron tubule epithelium6.62e-0910
lung1.13e-0822
respiratory tube1.13e-0822
respiration organ1.13e-0822
pair of lungs1.13e-0822
lung primordium1.13e-0822
lung bud1.13e-0822
respiratory system epithelium2.36e-0828
organism subdivision2.41e-08264
extraembryonic structure2.60e-0824
foregut2.64e-0887
urothelium3.77e-085
immaterial anatomical entity7.27e-08117
respiratory primordium8.86e-0838
endoderm of foregut8.86e-0838
tracheobronchial tree1.22e-0715
lower respiratory tract1.22e-0715
oral opening1.74e-0722
segment of respiratory tract2.14e-0747
reproductive structure2.27e-0759
reproductive system2.27e-0759
embryo2.76e-07592
internal genitalia2.96e-0725
thoracic segment of trunk2.97e-0752
subdivision of trunk3.28e-07112
organ component layer3.51e-0766
excretory tube3.77e-0716
kidney epithelium3.77e-0716
intestine4.23e-0717
multi-cellular organism6.03e-07656
developing anatomical structure6.99e-07581
placenta7.27e-074
allantois7.27e-074
Disease
Ontology termp-valuen
squamous cell carcinoma1.46e-1314
carcinoma2.35e-09106
adenocarcinoma9.05e-0825


Overrepresented TFBS (DNA) motifs on this co-expression clusterSummary: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. Analyst: Michiel de Hoon

link to source data
Novel motifs
data

Jaspar motifs
data


Novel motifs



JASPAR motifs

Motifs-log10(p-value)
MA0003.10.00461978
MA0004.10.558729
MA0006.10.391183
MA0007.10.539222
MA0009.11.03681
MA0014.10.0254709
MA0017.10.432438
MA0019.10.7124
MA0024.10.929647
MA0025.11.17262
MA0027.12.65688
MA0028.10.408079
MA0029.10.949428
MA0030.10.937696
MA0031.10.871496
MA0038.10.665566
MA0040.10.955415
MA0041.10.578072
MA0042.10.544748
MA0043.11.03713
MA0046.11.02569
MA0048.10.152639
MA0050.10.545671
MA0051.10.661179
MA0052.10.959373
MA0055.10.0586456
MA0056.10
MA0057.10.147053
MA0058.10.458909
MA0059.10.457555
MA0060.10.267412
MA0061.10.23892
MA0063.10
MA0066.10.66601
MA0067.11.35893
MA0068.10.578694
MA0069.11.02175
MA0070.11.01032
MA0071.10.625297
MA0072.11.00572
MA0073.10.0214749
MA0074.10.660398
MA0076.10.475586
MA0077.10.997832
MA0078.10.763954
MA0081.10.457725
MA0083.13.88117
MA0084.11.5477
MA0087.11.00322
MA0088.10.0971959
MA0089.10
MA0090.10.490736
MA0091.10.561458
MA0092.10.522012
MA0093.10.394379
MA0095.10
MA0098.10
MA0100.10.679972
MA0101.10.397846
MA0103.10.381434
MA0105.10.134725
MA0106.10.70837
MA0107.10.320267
MA0108.20.868347
MA0109.10
MA0111.10.504913
MA0113.11.72264
MA0114.10.314898
MA0115.11.28169
MA0116.10.323925
MA0117.11.07516
MA0119.10.440684
MA0122.11.10154
MA0124.11.23968
MA0125.11.15445
MA0130.10
MA0131.10.782708
MA0132.10
MA0133.10
MA0135.11.06778
MA0136.12.72169
MA0139.10.226048
MA0140.10.622527
MA0141.10.455728
MA0142.10.838805
MA0143.10.725558
MA0144.10.299851
MA0145.10.107156
MA0146.10.0213085
MA0147.10.327615
MA0148.10.584698
MA0149.10.612449
MA0062.20.23336
MA0035.20.621793
MA0039.20.00570825
MA0138.20.765223
MA0002.20.255126
MA0137.20.414885
MA0104.20.26661
MA0047.20.695777
MA0112.20.101413
MA0065.20.109623
MA0150.10.484557
MA0151.10
MA0152.10.629368
MA0153.12.56485
MA0154.10.132326
MA0155.10.0961854
MA0156.11.07131
MA0157.10.810597
MA0158.10
MA0159.10.328286
MA0160.10.600559
MA0161.10
MA0162.10.0383129
MA0163.10.0270301
MA0164.10.738243
MA0080.21.80563
MA0018.20.709805
MA0099.20.629739
MA0079.20.00575781
MA0102.21.58513
MA0258.10.289793
MA0259.10.336472
MA0442.10



ENCODE TF ChIP-seq peak enrichment analysisSummary: 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.
Analyst: Erik Arner

link to source dataset

data


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

TF#promotersEnrichmentp-valueq-value
POLR2A#543062.147453176558070.01019570676818780.0380540854536047



Relative expression of the co-expression clusterSummary:Co-expression clusters are compared against FANTOM5 samples to obtain relative expression.
Analyst:NA

link to data source
data


This analysis result is provided for C0 - C305 clusters.