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Coexpression cluster:C3377

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Full id: C3377_CD14_CD4_acute_immature_esophagus_NK_CD14CD16



Phase1 CAGE Peaks

  Short description
Hg19::chr13:48987196..48987207,- p3@LPAR6
Hg19::chr13:48987228..48987239,- p2@LPAR6
Hg19::chr13:48987241..48987260,- p1@LPAR6


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
adult organism3.90e-22115
hemolymphoid system5.71e-19112
hematopoietic system5.02e-18102
blood island5.02e-18102
immune system2.06e-15115
bone marrow3.42e-1380
bone element1.55e-1086
skeletal element4.03e-09101
skeletal system4.03e-09101


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
ELF1#199734.258097958807540.01295179875054610.0460845226801677
EP300#203336.77394172622320.003216880500103790.0167123206760354
FOXA1#3169311.08141974938550.000734755275698670.00580111175073279
FOXA2#3170324.63046375266526.68983856509345e-050.00107093815128724
GATA2#2624312.7449317335540.0004829527704283790.00436362180039532
GATA3#2625327.2365163572064.94721007899563e-050.000849805383947738
HDAC2#3066313.41562023662630.0004140761399857210.00390339362613672
JUN#3725312.51282919233630.0005103313992726250.00443562758061199
SP1#666735.69838137814090.005403962701712170.0245844169797498
SPI1#668838.204323508522730.001810593189410520.0108920305344649
STAT3#6774310.51946499715420.0008589184530415310.00641801418882482
TCF7L2#6934310.77017656313730.0008003181298398380.00612384974447526



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.