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Coexpression cluster:C2379

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Full id: C2379_smallcell_maxillary_malignant_kidney_pancreatic_signet_bronchioalveolar



Phase1 CAGE Peaks

  Short description
Hg19::chr16:57653596..57653610,+ p10@GPR56
Hg19::chr16:57653625..57653669,+ p3@GPR56
Hg19::chr16:57653946..57653968,+ p4@GPR56
Hg19::chr16:57653997..57654022,+ p7@GPR56


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 structure9.26e-35160
endoderm9.26e-35160
presumptive endoderm9.26e-35160
digestive system2.38e-27145
digestive tract2.38e-27145
primitive gut2.38e-27145
subdivision of digestive tract1.99e-25118
respiratory system1.03e-2174
foregut1.70e-1987
respiratory tract1.72e-1654
trunk region element3.94e-14101
renal system4.81e-1448
endo-epithelium5.44e-1482
immaterial anatomical entity9.70e-14117
urinary system structure1.39e-1347
respiratory primordium2.37e-1338
endoderm of foregut2.37e-1338
anatomical space5.17e-1395
segment of respiratory tract3.48e-1247
organ1.44e-11503
subdivision of trunk7.10e-11112
epithelial bud9.57e-1137
orifice6.45e-1036
thoracic cavity element8.83e-1034
thoracic cavity8.83e-1034
thoracic segment organ2.69e-0935
organism subdivision2.76e-09264
internal genitalia7.08e-0925
reproductive structure1.15e-0859
reproductive system1.15e-0859
epithelial fold1.17e-0847
oral opening1.86e-0822
reproductive organ4.79e-0848
organ part5.13e-08218
lung6.84e-0822
respiratory tube6.84e-0822
respiration organ6.84e-0822
pair of lungs6.84e-0822
lung primordium6.84e-0822
lung bud6.84e-0822
nephron tubule epithelium8.00e-0810
thoracic segment of trunk1.54e-0752
respiratory system epithelium1.74e-0728
primordium1.76e-07160
kidney3.10e-0726
kidney mesenchyme3.10e-0726
upper urinary tract3.10e-0726
kidney rudiment3.10e-0726
kidney field3.10e-0726
multi-cellular organism3.59e-07656
extraembryonic membrane5.01e-0714
membranous layer5.01e-0714
gland5.12e-0759
cavitated compound organ6.24e-0731
female organism6.26e-0741
embryo6.47e-07592
Disease
Ontology termp-valuen
carcinoma2.04e-27106
cell type cancer6.63e-19143
squamous cell carcinoma8.12e-1114
adenocarcinoma4.41e-0925
cancer8.40e-07235


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)
MA0003.10.233555
MA0004.10.71247
MA0006.10.532262
MA0007.10.6918
MA0009.11.20602
MA0014.10.896009
MA0017.10.577281
MA0019.10.873355
MA0024.11.09684
MA0025.11.34373
MA0027.12.83281
MA0028.11.35734
MA0029.11.11704
MA0030.11.10506
MA0031.11.03735
MA0038.10.824639
MA0040.11.12314
MA0041.10.732902
MA0042.10.697662
MA0043.11.20635
MA0046.11.19471
MA0048.10.709734
MA0050.10.69864
MA0051.10.820063
MA0052.11.12718
MA0055.11.8712
MA0056.10
MA0057.11.98521
MA0058.10.605914
MA0059.10.604454
MA0060.10.393285
MA0061.10.946082
MA0063.10
MA0066.11.92841
MA0067.11.53181
MA0068.10.841508
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
MA0081.10.604638
MA0083.11.21381
MA0084.11.72172
MA0087.11.17185
MA0088.13.07281
MA0089.10
MA0090.10.640115
MA0091.12.85665
MA0092.10.673508
MA0093.10.535768
MA0095.10
MA0098.10
MA0100.10.83965
MA0101.10.539569
MA0103.11.29536
MA0105.10.656404
MA0106.12.01886
MA0107.10.453492
MA0108.21.03412
MA0109.10
MA0111.10.655276
MA0113.10.886811
MA0114.10.447443
MA0115.11.45393
MA0116.11.15856
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
MA0140.10.779643
MA0141.10.602484
MA0142.11.00381
MA0143.10.887001
MA0144.12.87436
MA0145.17.93915
MA0146.13.58384
MA0147.10.46175
MA0148.10.739888
MA0149.10.769072
MA0062.20.931615
MA0035.20.778873
MA0039.20.257871
MA0138.20.928035
MA0002.20.379056
MA0137.21.37305
MA0104.20.392359
MA0047.20.856092
MA0112.23.96014
MA0065.21.7213
MA0150.11.53138
MA0151.10
MA0152.10.78681
MA0153.11.30799
MA0154.11.21162
MA0155.11.61785
MA0156.11.37856
MA0157.10.97481
MA0158.10
MA0159.14.10107
MA0160.10.756582
MA0161.10
MA0162.10.309472
MA0163.10.539587
MA0164.10.90014
MA0080.20.535868
MA0018.20.870662
MA0099.20.7872
MA0079.21.11128
MA0102.21.75932
MA0258.14.94877
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
E2F1#186944.907389214879320.001724022357361790.0106434457043511
ESR1#2099430.76860329615451.11467714392546e-064.60141368515537e-05



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.