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Coexpression cluster:C974

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Full id: C974_Dendritic_CD8_CD4_Natural_NK_B_Basophils



Phase1 CAGE Peaks

Hg19::chr10:129979299..129979317,+p1@uc001lkg.1
Hg19::chr10:129979342..129979357,+p2@uc001lkg.1
Hg19::chr10:129979383..129979404,+p3@uc001lkg.1
Hg19::chr20:62367972..62367984,+p3@LIME1
Hg19::chr20:62368028..62368039,+p4@LIME1
Hg19::chr2:102972753..102972800,+p4@IL18R1
Hg19::chrX:70838306..70838369,-p1@CXCR3
Hg19::chrX:70838380..70838395,-p2@CXCR3


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:0019955cytokine binding0.00183758911621637
GO:0004908interleukin-1 receptor activity0.0154665555303623
GO:0019966interleukin-1 binding0.0154665555303623
GO:0016494C-X-C chemokine receptor activity0.0154665555303623
GO:0019958C-X-C chemokine binding0.0154665555303623
GO:0005886plasma membrane0.01723178285095
GO:0016493C-C chemokine receptor activity0.0187002886462243
GO:0019957C-C chemokine binding0.0187002886462243
GO:0004907interleukin receptor activity0.0187002886462243
GO:0001637G-protein chemoattractant receptor activity0.0187002886462243
GO:0004950chemokine receptor activity0.0187002886462243
GO:0019956chemokine binding0.0187002886462243
GO:0019965interleukin binding0.0187002886462243
GO:0006955immune response0.0187002886462243
GO:0002376immune system process0.0236252975438142
GO:0004896hematopoietin/interferon-class (D200-domain) cytokine receptor activity0.0250187790858287
GO:0051480cytosolic calcium ion homeostasis0.0250187790858287
GO:0007204elevation of cytosolic calcium ion concentration0.0250187790858287
GO:0016021integral to membrane0.0272501061713494
GO:0031224intrinsic to membrane0.0272501061713494
GO:0019838growth factor binding0.0272501061713494
GO:0045087innate immune response0.0292619805128171
GO:0055074calcium ion homeostasis0.0292619805128171
GO:0006874cellular calcium ion homeostasis0.0292619805128171
GO:0004888transmembrane receptor activity0.0292619805128171
GO:0006875cellular metal ion homeostasis0.0292619805128171
GO:0055065metal ion homeostasis0.0292619805128171
GO:0044425membrane part0.029686163485034
GO:0042330taxis0.029686163485034
GO:0006935chemotaxis0.029686163485034
GO:0001653peptide receptor activity0.029686163485034
GO:0008528peptide receptor activity, G-protein coupled0.029686163485034
GO:0030005cellular di-, tri-valent inorganic cation homeostasis0.0335256500190761
GO:0007626locomotory behavior0.0335256500190761
GO:0055066di-, tri-valent inorganic cation homeostasis0.0335256500190761
GO:0030003cellular cation homeostasis0.0350714466327775
GO:0055080cation homeostasis0.0350714466327775
GO:0042277peptide binding0.0350714466327775
GO:0055082cellular chemical homeostasis0.0379306900088159
GO:0006873cellular ion homeostasis0.0379306900088159
GO:0004872receptor activity0.0400874681138121
GO:0050801ion homeostasis0.0400874681138121
GO:0016020membrane0.0400874681138121
GO:0007610behavior0.0427037919488679
GO:0048878chemical homeostasis0.0428808753857429
GO:0019725cellular homeostasis0.048826880339797
GO:0060089molecular transducer activity0.048826880339797
GO:0004871signal transducer activity0.048826880339797
GO:0051674localization of cell0.048826880339797
GO:0006928cell motility0.048826880339797



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>

Uber Anatomy
Ontology termp-valuen
blood4.30e-1315
haemolymphatic fluid4.30e-1315
organism substance4.30e-1315
adult organism8.11e-11114
hemopoietic organ7.18e-087
immune organ7.18e-087
thymus3.00e-074
hemolymphoid system gland3.00e-074
thymic region3.00e-074
pharyngeal gland3.00e-074
thymus primordium3.00e-074


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
EBF1#187955.566541779105630.0007445813282558610.0058636200679923



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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