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Coexpression cluster:C3425

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Full id: C3425_prostate_papillary_bronchioalveolar_small_lung_thyroid_nonsmall



Phase1 CAGE Peaks

  Short description
Hg19::chr14:36982432..36982437,- p10@SFTA3
Hg19::chr14:36982707..36982717,- p8@SFTA3
Hg19::chr14:36982724..36982767,- p1@SFTA3


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
thyroid gland1.55e-255
pharyngeal pouch1.55e-255
thyroid diverticulum1.55e-255
pharyngeal pouch 21.55e-255
thyroid primordium1.55e-255
lung7.04e-2222
respiratory tube7.04e-2222
respiration organ7.04e-2222
pair of lungs7.04e-2222
lung primordium7.04e-2222
lung bud7.04e-2222
thoracic cavity element2.45e-2134
thoracic cavity2.45e-2134
thoracic segment organ1.11e-2035
respiratory primordium6.38e-1938
endoderm of foregut6.38e-1938
epithelial bud5.89e-1637
respiratory tract1.58e-1554
endo-epithelium6.55e-1482
thoracic segment of trunk2.16e-1352
epithelial fold2.87e-1247
entire pharyngeal arch endoderm1.00e-1111
early pharyngeal endoderm1.00e-1111
respiratory system7.97e-1174
respiratory tract epithelium3.13e-1019
lung epithelium3.13e-1019
endoderm-derived structure1.87e-09160
endoderm1.87e-09160
presumptive endoderm1.87e-09160
digestive system2.64e-09145
digestive tract2.64e-09145
primitive gut2.64e-09145
lower lobe of right lung3.05e-091
right lung lobe3.05e-091
lower lobe of lung3.05e-091
lobe of lung3.05e-091
right lung3.05e-091
nucleus accumbens1.16e-081
ventral striatum1.16e-081
corpus striatum2.13e-084
striatum2.13e-084
ventral part of telencephalon2.13e-084
future corpus striatum2.13e-084
tracheobronchial tree2.24e-0815
lower respiratory tract2.24e-0815
foregut2.37e-0787
segment of respiratory tract2.55e-0747
pharyngeal arch system3.28e-0718
primordium5.12e-07160
respiratory system epithelium7.16e-0728
Disease
Ontology termp-valuen
papillary adenocarcinoma1.89e-091
somatostatinoma4.19e-091
lung cancer1.12e-0815
lung carcinoma1.51e-089
respiratory system cancer3.85e-0816
non-small cell lung carcinoma2.70e-075


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)

{{{tfbs_overrepresentation_jaspar}}}



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
CTBP2#1488362.71700033932814.049570681927e-060.000129297802644382
SUZ12#23512350.11578091106297.93834897779404e-060.000221736621795087



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.