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Coexpression cluster:C1848

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Full id: C1848_Corneal_Keratinocyte_Small_Urothelial_Esophageal_Tracheal_Sebocyte



Phase1 CAGE Peaks

  Short description
Hg19::chr1:209600864..209600901,+ p@chr1:209600864..209600901
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Hg19::chr1:209601463..209601482,+ p@chr1:209601463..209601482
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Hg19::chr1:209601486..209601506,+ p@chr1:209601486..209601506
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Hg19::chr1:209601525..209601530,+ p@chr1:209601525..209601530
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Hg19::chr1:209601594..209601611,+ p@chr1:209601594..209601611
+


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


No GOStat results

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


Cell Type
Ontology termp-valuen
endo-epithelial cell3.43e-3442
endodermal cell4.80e-2558
epithelial cell4.29e-23253
respiratory epithelial cell7.53e-2213
general ecto-epithelial cell3.13e-2014
epithelial cell of alimentary canal7.11e-1820
transitional epithelial cell3.60e-134
urothelial cell3.60e-134
ecto-epithelial cell3.77e-1234
epithelial cell of tracheobronchial tree8.13e-129
epithelial cell of lower respiratory tract8.13e-129
squamous epithelial cell9.45e-1263
duct epithelial cell6.31e-103
branched duct epithelial cell6.31e-103
tracheal epithelial cell6.31e-103
tracheoblast6.31e-103
bronchial epithelial cell6.50e-103
epithelial cell of Malassez1.39e-093
acinar cell1.44e-095
gingival epithelial cell1.71e-093
stratified squamous epithelial cell1.41e-086
keratin accumulating cell1.41e-086
stratified epithelial cell1.41e-086
keratinizing barrier epithelial cell1.41e-086
epithelial fate stem cell1.41e-086
stratified epithelial stem cell1.41e-086
surface ectodermal cell1.41e-086
embryonic cell1.63e-08250
epidermal cell2.08e-089
protein secreting cell5.71e-086
corneal epithelial cell1.31e-072
sebum secreting cell2.91e-072
epithelial cell of sweat gland2.91e-072
epithelial cell of skin gland2.91e-072
acinar cell of sebaceous gland2.91e-072
mammary gland epithelial cell7.79e-074
Uber Anatomy
Ontology termp-valuen
respiratory system6.92e-1674
urothelium1.69e-155
surface structure3.15e-1499
endoderm-derived structure6.58e-14160
endoderm6.58e-14160
presumptive endoderm6.58e-14160
orifice8.76e-1436
oral opening5.90e-1322
mouth mucosa7.19e-1313
transitional epithelium7.59e-136
mucosa3.15e-1220
anterior region of body9.73e-1262
craniocervical region9.73e-1262
mouth2.51e-1129
stomodeum2.51e-1129
mucosa of oral region4.38e-114
respiratory system mucosa4.38e-114
head1.24e-1056
lower respiratory tract epithelium6.50e-103
epithelium of bronchus6.50e-103
respiratory tract9.42e-1054
gingival epithelium1.71e-093
neck4.60e-0910
tracheobronchial tree6.51e-0915
lower respiratory tract6.51e-0915
subdivision of head3.33e-0849
digestive system5.22e-08145
digestive tract5.22e-08145
primitive gut5.22e-08145
jaw skeleton2.84e-074
splanchnocranium2.84e-074
skin gland2.91e-072
epidermis gland2.91e-072
gland of integumental system2.91e-072
sebaceous gland2.91e-072
skin sebaceous gland2.91e-072
sweat gland2.91e-072
sweat gland placode2.91e-072
sebaceous gland placode2.91e-072
trachea5.72e-077
respiratory airway5.72e-077
mammary gland7.79e-074
mammary bud7.79e-074
mammary ridge7.79e-074
mammary placode7.79e-074
thoracic cavity element9.97e-0734
thoracic cavity9.97e-0734
Disease
Ontology termp-valuen
squamous cell carcinoma1.92e-2114


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)
MA0003.10.00991994
MA0004.10.626788
MA0006.10.452993
MA0007.10.606704
MA0009.11.11255
MA0014.10.369468
MA0017.10.496101
MA0019.10.784036
MA0024.11.00439
MA0025.11.24931
MA0027.12.73598
MA0028.10.470679
MA0029.11.02437
MA0030.11.01252
MA0031.10.945567
MA0038.10.736268
MA0040.11.03042
MA0041.10.64667
MA0042.10.612397
MA0043.11.11288
MA0046.11.10134
MA0048.10.195817
MA0050.10.613347
MA0051.11.73592
MA0052.11.03442
MA0055.10.0853006
MA0056.10
MA0057.17.82826
MA0058.10.523638
MA0059.10.522232
MA0060.10.321781
MA0061.10.291022
MA0063.10
MA0066.10.736721
MA0067.11.43651
MA0068.11.28241
MA0069.11.09737
MA0070.11.08584
MA0071.11.65981
MA0072.11.0812
MA0073.10.00220137
MA0074.10.730989
MA0076.10.540943
MA0077.11.07324
MA0078.10.836493
MA0081.11.2972
MA0083.11.12028
MA0084.11.62584
MA0087.11.07867
MA0088.11.3271
MA0089.10
MA0090.10.556637
MA0091.10.629594
MA0092.10.588959
MA0093.11.15584
MA0095.10
MA0098.10
MA0100.10.750974
MA0101.10.459973
MA0103.11.12656
MA0105.10.175503
MA0106.10.779931
MA0107.10.378225
MA0108.22.16859
MA0109.10
MA0111.12.39477
MA0113.10.797251
MA0114.10.973423
MA0115.11.35895
MA0116.10.382106
MA0117.11.1512
MA0119.10.504689
MA0122.11.17777
MA0124.11.31673
MA0125.11.23103
MA0130.10
MA0131.10.855546
MA0132.10
MA0133.10
MA0135.11.14377
MA0136.10.743749
MA0139.10.277033
MA0140.11.65391
MA0141.10.520334
MA0142.10.912455
MA0143.10.797437
MA0144.10.356507
MA0145.10.143698
MA0146.10.143081
MA0147.10.386018
MA0148.10.653474
MA0149.10.681935
MA0062.20.284987
MA0035.21.65235
MA0039.23.41529
MA0138.20.837782
MA0002.20.30855
MA0137.20.47779
MA0104.20.320919
MA0047.20.767096
MA0112.20.839774
MA0065.20.449243
MA0150.10.550239
MA0151.10
MA0152.10.69926
MA0153.11.21379
MA0154.10.172764
MA0155.14.91907
MA0156.10.480289
MA0157.10.883854
MA0158.10
MA0159.12.67024
MA0160.11.60707
MA0161.10
MA0162.10.81299
MA0163.10.0439995
MA0164.10.810347
MA0080.20.456437
MA0018.20.781393
MA0099.20.699641
MA0079.25.7251
MA0102.21.66336
MA0258.10.345771
MA0259.10.395396
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
EP300#203345.419153380978560.00209386927943890.0121193534513035
FOXA1#316948.865135799508360.0003075468591372710.00316795408042583
GATA3#2625421.78921308576488.81158303710445e-060.000237673791532064
STAT3#677448.415571997723390.0003771527211598630.00374317714009455



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.