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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


Uber Anatomy
Ontology termp-valuen
respiratory tract1.11e-1753
thoracic cavity element1.93e-1734
thoracic cavity1.93e-1734
lung4.73e-1722
respiratory tube4.73e-1722
respiration organ4.73e-1722
pair of lungs4.73e-1722
lung primordium4.73e-1722
lung bud4.73e-1722
thoracic segment organ7.42e-1735
corpus striatum7.76e-164
striatum7.76e-164
ventral part of telencephalon7.76e-164
future corpus striatum7.76e-164
respiratory primordium2.74e-1538
endoderm of foregut2.74e-1538
thyroid gland6.32e-145
pharyngeal pouch6.32e-145
thyroid diverticulum6.32e-145
pharyngeal pouch 26.32e-145
thyroid primordium6.32e-145
telencephalic nucleus1.09e-137
tracheobronchial tree4.89e-1314
lower respiratory tract4.89e-1314
caudate-putamen1.66e-123
dorsal striatum1.66e-123
respiratory system6.02e-1272
epithelial bud2.15e-1137
nucleus of brain1.38e-109
basal ganglion1.38e-109
neural nucleus1.38e-109
nuclear complex of neuraxis1.38e-109
aggregate regional part of brain1.38e-109
collection of basal ganglia1.38e-109
cerebral subcortex1.38e-109
thoracic segment of trunk2.21e-1052
respiratory tract epithelium9.14e-1019
lung epithelium9.14e-1019
throat4.42e-092
caudate nucleus5.62e-092
future caudate nucleus5.62e-092
open tracheal system trachea6.09e-092
regional part of forebrain6.55e-0941
forebrain6.55e-0941
future forebrain6.55e-0941
anterior neural tube1.18e-0842
endo-epithelium5.41e-0882
regional part of brain6.24e-0859
epithelial fold1.23e-0751
tube1.96e-07194
anatomical cluster2.46e-07286
neural tube5.10e-0757
neural rod5.10e-0757
future spinal cord5.10e-0757
neural keel5.10e-0757
epithelium7.06e-07309
segment of respiratory tract7.23e-0746
cell layer9.67e-07312


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.