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Coexpression cluster:C2862

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Full id: C2862_lung_bronchioalveolar_epidermoid_prostate_mucinous_bile_squamous



Phase1 CAGE Peaks

  Short description
Hg19::chr6:47009992..47009993,- p4@GPR110
Hg19::chr6:47009996..47010035,- p2@GPR110
Hg19::chr6:47010042..47010053,- p3@GPR110
Hg19::chr6:47010061..47010104,- p1@GPR110


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


Uber Anatomy
Ontology termp-valuen
endoderm-derived structure1.10e-26160
endoderm1.10e-26160
presumptive endoderm1.10e-26160
digestive system8.20e-22145
digestive tract8.20e-22145
primitive gut8.20e-22145
respiratory system8.33e-1774
endo-epithelium8.79e-1682
subdivision of digestive tract4.39e-15118
orifice2.90e-1436
epithelial bud4.07e-1437
thoracic cavity element5.31e-1334
thoracic cavity5.31e-1334
respiratory tract9.67e-1354
thoracic segment organ1.84e-1235
epithelial fold5.40e-1247
renal system7.78e-1248
anatomical space1.19e-1195
trunk region element2.08e-11101
foregut3.92e-1187
urinary system structure5.32e-1147
organism subdivision3.26e-10264
oral opening7.05e-1022
organ7.11e-10503
immaterial anatomical entity8.17e-10117
reproductive structure7.67e-0959
reproductive system7.67e-0959
mucosa1.10e-0820
lung1.19e-0822
respiratory tube1.19e-0822
respiration organ1.19e-0822
pair of lungs1.19e-0822
lung primordium1.19e-0822
lung bud1.19e-0822
respiratory primordium1.40e-0838
endoderm of foregut1.40e-0838
female organism1.64e-0841
segment of respiratory tract5.97e-0847
surface structure7.56e-0899
mouth8.10e-0829
stomodeum8.10e-0829
urothelium1.06e-075
pharyngeal arch system1.14e-0718
respiratory system epithelium1.31e-0728
tracheobronchial tree1.78e-0715
lower respiratory tract1.78e-0715
thoracic segment of trunk2.18e-0752
multi-tissue structure4.59e-07342
subdivision of trunk4.73e-07112
reproductive organ4.83e-0748
embryo4.98e-07592
nephron tubule epithelium5.82e-0710
mammary gland6.92e-074
mammary bud6.92e-074
mammary ridge6.92e-074
mammary placode6.92e-074
anatomical system6.97e-07624
anatomical group7.96e-07625
developing anatomical structure8.15e-07581
Disease
Ontology termp-valuen
squamous cell carcinoma2.90e-1714
carcinoma4.11e-17106
adenocarcinoma4.63e-1425
cell type cancer2.03e-09143


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)
MA0003.10.0214529
MA0004.10.71247
MA0006.11.31813
MA0007.10.6918
MA0009.11.20602
MA0014.10.524262
MA0017.10.577281
MA0019.10.873355
MA0024.11.09684
MA0025.11.34373
MA0027.12.83281
MA0028.10.550763
MA0029.11.11704
MA0030.11.10506
MA0031.11.03735
MA0038.11.92746
MA0040.11.12314
MA0041.10.732902
MA0042.10.697662
MA0043.11.20635
MA0046.11.19471
MA0048.10.25531
MA0050.10.69864
MA0051.10.820063
MA0052.11.12718
MA0055.10.125954
MA0056.10
MA0057.11.98521
MA0058.10.605914
MA0059.10.604454
MA0060.10.393285
MA0061.10.360128
MA0063.10
MA0066.10.825101
MA0067.11.53181
MA0068.10.313194
MA0069.11.19071
MA0070.11.17908
MA0071.10.782546
MA0072.11.1744
MA0073.10.00636811
MA0074.10.819248
MA0076.10.623864
MA0077.11.16637
MA0078.10.926725
MA0081.11.4709
MA0083.11.21381
MA0084.11.72172
MA0087.11.17185
MA0088.10.182167
MA0089.10
MA0090.10.640115
MA0091.10.715356
MA0092.11.6149
MA0093.10.535768
MA0095.10
MA0098.10
MA0100.10.83965
MA0101.10.539569
MA0103.10.521546
MA0105.10.232357
MA0106.10.869173
MA0107.10.453492
MA0108.21.03412
MA0109.10
MA0111.10.655276
MA0113.10.886811
MA0114.10.447443
MA0115.11.45393
MA0116.10.457606
MA0117.11.24497
MA0119.10.586221
MA0122.11.27173
MA0124.11.41151
MA0125.11.32534
MA0130.10
MA0131.10.94608
MA0132.10
MA0133.10
MA0135.11.23748
MA0136.10.832277
MA0139.10.344952
MA0140.13.05944
MA0141.10.602484
MA0142.11.00381
MA0143.10.887001
MA0144.11.09982
MA0145.10.195821
MA0146.10.061409
MA0147.10.46175
MA0148.10.739888
MA0149.10.769072
MA0062.20.353589
MA0035.20.778873
MA0039.20.257871
MA0138.20.928035
MA0002.20.98779
MA0137.21.37305
MA0104.20.392359
MA0047.20.856092
MA0112.20.187982
MA0065.20.577908
MA0150.10.633493
MA0151.10
MA0152.10.78681
MA0153.11.30799
MA0154.10.229241
MA0155.11.02191
MA0156.10.560797
MA0157.10.97481
MA0158.10
MA0159.10.462502
MA0160.10.756582
MA0161.10
MA0162.10.0928415
MA0163.10.0725493
MA0164.10.90014
MA0080.20.535868
MA0018.20.870662
MA0099.20.7872
MA0079.20.122011
MA0102.21.75932
MA0258.10.418966
MA0259.10.471671
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
ESR1#2099430.76860329615451.11467714392546e-064.6160097634588e-05
GATA3#2625427.2365163572061.81561517799785e-066.79158429709588e-05
NR3C1#2908414.9730233311731.98868032687801e-050.000444459201067435
STAT3#6774410.51946499715428.16377768286615e-050.00123496056984481



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.