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Coexpression cluster:C1498

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Full id: C1498_CD4_CD8_Natural_NK_Eosinophils_Peripheral_Basophils



Phase1 CAGE Peaks

Hg19::chr2:162757013..162757026,+p@chr2:162757013..162757026
+
Hg19::chr2:162762129..162762142,+p@chr2:162762129..162762142
+
Hg19::chr2:228713485..228713496,-p@chr2:228713485..228713496
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Hg19::chr3:125555350..125555354,+p@chr3:125555350..125555354
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Hg19::chr3:129295980..129295991,+p@chr3:129295980..129295991
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Hg19::chr8:67380079..67380085,-p@chr8:67380079..67380085
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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


No GOStat results

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>


Cell Type
Ontology termp-valuen
mature alpha-beta T cell3.73e-3218
alpha-beta T cell3.73e-3218
immature T cell3.73e-3218
mature T cell3.73e-3218
immature alpha-beta T cell3.73e-3218
lymphoid lineage restricted progenitor cell5.98e-2752
lymphocyte3.07e-2653
common lymphoid progenitor3.07e-2653
leukocyte1.89e-24140
T cell5.41e-2425
pro-T cell5.41e-2425
nongranular leukocyte3.32e-22119
CD8-positive, alpha-beta T cell2.04e-2011
hematopoietic stem cell2.08e-19172
angioblastic mesenchymal cell2.08e-19172
hematopoietic cell2.99e-18182
hematopoietic lineage restricted progenitor cell3.17e-17124
hematopoietic oligopotent progenitor cell4.32e-16165
hematopoietic multipotent progenitor cell4.32e-16165
CD4-positive, alpha-beta T cell1.15e-116
granulocyte5.72e-088
blood cell3.14e-0711
natural killer cell6.93e-073
pro-NK cell6.93e-073
naive T cell9.30e-073
Uber Anatomy
Ontology termp-valuen
blood5.45e-1515
haemolymphatic fluid5.45e-1515
organism substance5.45e-1515
hemolymphoid system4.29e-11112
hemopoietic organ1.16e-107
hematopoietic system1.19e-10102
blood island1.19e-10102
thymus2.22e-074
hemolymphoid system gland2.22e-074
thymic region2.22e-074
pharyngeal gland2.22e-074
thymus primordium2.22e-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


No analysis results for this cluster

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.