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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
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Hg19::chr2:162762129..162762142,+p@chr2:162762129..162762142
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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 cell1.77e-7718
alpha-beta T cell1.77e-7718
immature T cell1.77e-7718
mature T cell1.77e-7718
immature alpha-beta T cell1.77e-7718
T cell1.09e-5425
pro-T cell1.09e-5425
CD8-positive, alpha-beta T cell3.02e-5411
lymphoid lineage restricted progenitor cell2.33e-3452
lymphocyte1.27e-3353
common lymphoid progenitor1.27e-3353
nucleate cell3.13e-3255
leukocyte2.90e-24136
nongranular leukocyte2.07e-21115
CD4-positive, alpha-beta T cell5.62e-216
hematopoietic stem cell1.84e-18168
angioblastic mesenchymal cell1.84e-18168
hematopoietic cell3.31e-17177
natural killer cell5.73e-163
pro-NK cell5.73e-163
single nucleate cell9.95e-163
mononuclear cell9.95e-163
hematopoietic lineage restricted progenitor cell4.72e-15120
hematopoietic oligopotent progenitor cell6.10e-15161
hematopoietic multipotent progenitor cell6.10e-15161
basophil7.13e-153
thymocyte5.81e-112
double negative thymocyte5.81e-112
double-positive, alpha-beta thymocyte5.81e-112
DN4 thymocyte5.81e-112
DN1 thymic pro-T cell5.81e-112
DN2 thymocyte5.81e-112
DN3 thymocyte5.81e-112
immature single positive thymocyte5.81e-112
early T lineage precursor5.81e-112
granulocyte1.14e-098
circulating cell4.27e-086
naive T cell4.92e-083
blood cell4.65e-0711
CD4-positive, alpha-beta thymocyte9.91e-071
naive thymus-derived CD4-positive, alpha-beta T cell9.91e-071
mature CD4 single-positive thymocyte9.91e-071
resting double-positive thymocyte9.91e-071
double-positive blast9.91e-071
CD69-positive double-positive thymocyte9.91e-071
CD69-positive, CD4-positive single-positive thymocyte9.91e-071
CD4-positive, CD8-intermediate double-positive thymocyte9.91e-071
CD24-positive, CD4 single-positive thymocyte9.91e-071
Uber Anatomy
Ontology termp-valuen
thymus1.78e-114
hemolymphoid system gland1.78e-114
thymic region1.78e-114
pharyngeal gland1.78e-114
thymus primordium1.78e-114
blood3.35e-1115
haemolymphatic fluid3.35e-1115
organism substance3.35e-1115
hemopoietic organ4.18e-117
immune organ4.18e-117
pharyngeal epithelium8.36e-086


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.