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Coexpression cluster:C1471

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Full id: C1471_salivary_kidney_submaxillary_parotid_adenocarcinoma_trachea_ductus



Phase1 CAGE Peaks

Hg19::chr1:217311090..217311097,-p26@ESRRG
Hg19::chr7:138482733..138482757,+p1@TMEM213
Hg19::chr7:138482916..138482927,-p3@ATP6V0A4
Hg19::chr7:138482933..138482946,-p2@ATP6V0A4
Hg19::chr7:138482949..138482954,-p10@ATP6V0A4
Hg19::chr7:138484401..138484416,-p8@ATP6V0A4


Enriched pathways on this co-expression cluster<b>Summary:</b><br>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.<br><b>Analyst: </b>Emmanuel Dimont<br><br>link to source dataset<br>data

No results for this coexpression

Enriched Gene Ontology terms on this co-expression cluster<b>Summary:</b> 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. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br>data

GO IDGO nameFDR corrected p-value
GO:0050682AF-2 domain binding0.0159284217538759
GO:0033176proton-transporting V-type ATPase complex0.0159284217538759
GO:0016471vacuolar proton-transporting V-type ATPase complex0.0159284217538759
GO:0031526brush border membrane0.0159284217538759
GO:0031253cell projection membrane0.0159284217538759
GO:0005903brush border0.0277491655280892
GO:0016439tRNA-pseudouridine synthase activity0.0297538403539397
GO:0006885regulation of pH0.0297538403539397
GO:0009982pseudouridine synthase activity0.0297538403539397
GO:0007588excretion0.0303949284521266
GO:0044463cell projection part0.0309189706234276
GO:0005774vacuolar membrane0.0327946621331735
GO:0044437vacuolar part0.0327946621331735
GO:0016324apical plasma membrane0.0327946621331735
GO:0016866intramolecular transferase activity0.0327946621331735
GO:0005496steroid binding0.0334955096926417
GO:0045177apical part of cell0.0334955096926417
GO:0031214biomineral formation0.0334955096926417
GO:0001503ossification0.0334955096926417
GO:0046849bone remodeling0.0347094355554021
GO:0048771tissue remodeling0.0348443475486375
GO:0016469proton-transporting two-sector ATPase complex0.0348443475486375
GO:0003707steroid hormone receptor activity0.0348443475486375
GO:0019904protein domain specific binding0.0348443475486375
GO:0050954sensory perception of mechanical stimulus0.0348443475486375
GO:0007605sensory perception of sound0.0348443475486375
GO:0015992proton transport0.0348443475486375
GO:0006818hydrogen transport0.0348443475486375
GO:0004879ligand-dependent nuclear receptor activity0.0381184060088978
GO:0015078hydrogen ion transmembrane transporter activity0.0486706314057502
GO:0001501skeletal development0.0486706314057502
GO:0015077monovalent inorganic cation transmembrane transporter activity0.0487734568188069
GO:0045893positive regulation of transcription, DNA-dependent0.0487734568188069
GO:0005773vacuole0.0494544620923417



Enriched sample ontology terms on this co-expression cluster<b>Summary:</b>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. <b>Analyst:</b> Hideya Kawaji <br><br>links to source dataset<br><br>cell_data<br>uberon_data<br><br>


Overrepresented TFBS (DNA) motifs on this co-expression cluster<b>Summary:</b>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. <b>Analyst:</b> Michiel de Hoon <br><br>link to source data <br> Novel motifs <br>data <br><br> Jaspar motifs <br>data

Novel motifs



JASPAR motifs

Motifs-log10(p-value)

{{{tfbs_overrepresentation_jaspar}}}



ENCODE TF ChIP-seq peak enrichment analysis<b>Summary:</b> 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. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br><br>data

(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF#promotersEnrichmentp-valueq-value
CTCF#1066443.573504248716680.01316635007238510.0466113160641954
NANOG#79923419.49651898734181.9383725252986e-050.000437239067321081
RAD21#588546.903355930304220.00111085151625360.00771435743772925



Relative expression of the co-expression cluster<b>Summary:</b>Co-expression clusters are compared against FANTOM5 samples to obtain relative expression. <br><b>Analyst:</b>NA<br><br>link to data source<br> data

This analysis result is provided for C0 - C305 clusters.

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