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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0003081!4.77e-22!216;UBERON:0002371!5.60e-20!80;UBERON:0001474!1.77e-19!86;UBERON:0004765!2.12e-17!101;UBERON:0001434!2.12e-17!101;UBERON:0002193!1.13e-15!112;UBERON:0002390!2.00e-15!102;UBERON:0003061!2.00e-15!102;UBERON:0000926!3.15e-13!448;UBERON:0004120!3.15e-13!448;UBERON:0006603!3.15e-13!448;UBERON:0002405!6.88e-13!115;UBERON:0002204!1.22e-12!167;UBERON:0001986!8.52e-08!18;UBERON:0004638!8.52e-08!18;UBERON:0004852!8.52e-08!18;UBERON:0002049!1.02e-07!79;UBERON:0007798!1.02e-07!79;UBERON:0000055!2.03e-07!69
|ontology_enrichment_uberon=UBERON:0003081!4.77e-22!216;UBERON:0002371!5.60e-20!80;UBERON:0001474!1.77e-19!86;UBERON:0004765!2.12e-17!101;UBERON:0001434!2.12e-17!101;UBERON:0002193!1.13e-15!112;UBERON:0002390!2.00e-15!102;UBERON:0003061!2.00e-15!102;UBERON:0000926!3.15e-13!448;UBERON:0004120!3.15e-13!448;UBERON:0006603!3.15e-13!448;UBERON:0002405!6.88e-13!115;UBERON:0002204!1.22e-12!167;UBERON:0001986!8.52e-08!18;UBERON:0004638!8.52e-08!18;UBERON:0004852!8.52e-08!18;UBERON:0002049!1.02e-07!79;UBERON:0007798!1.02e-07!79;UBERON:0000055!2.03e-07!69
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}}
}}

Revision as of 19:29, 8 August 2012


Full id: C3832_CD14_Eosinophils_Basophils_Neutrophils_immature_Mast_migratory



Phase1 CAGE Peaks

Hg19::chr19:7742793..7742822,+p@chr19:7742793..7742822
+
Hg19::chr22:39096633..39096650,-p4@JOSD1
Hg19::chr22:39096661..39096681,-p2@JOSD1


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
myeloid leukocyte8.64e-2676
classical monocyte1.86e-2345
CD14-positive, CD16-negative classical monocyte3.22e-2342
granulocyte monocyte progenitor cell1.07e-2271
macrophage dendritic cell progenitor3.63e-2165
monopoietic cell4.94e-2063
monocyte4.94e-2063
monoblast4.94e-2063
promonocyte4.94e-2063
myeloid lineage restricted progenitor cell2.55e-1970
animal cell7.87e-14679
eukaryotic cell7.87e-14679
myeloid cell1.04e-12112
common myeloid progenitor1.04e-12112
somatic cell2.04e-10591
meso-epithelial cell3.40e-1044
leukocyte4.40e-10140
lining cell6.15e-1057
barrier cell6.15e-1057
endothelial cell1.54e-0935
endothelial cell of vascular tree1.44e-0824
epithelial cell1.85e-08254
blood vessel endothelial cell8.52e-0818
embryonic blood vessel endothelial progenitor cell8.52e-0818
mesodermal cell1.50e-07119
native cell5.12e-07722
Uber Anatomy
Ontology termp-valuen
lateral plate mesoderm4.77e-22216
bone marrow5.60e-2080
bone element1.77e-1986
skeletal element2.12e-17101
skeletal system2.12e-17101
hemolymphoid system1.13e-15112
hematopoietic system2.00e-15102
blood island2.00e-15102
mesoderm3.15e-13448
mesoderm-derived structure3.15e-13448
presumptive mesoderm3.15e-13448
immune system6.88e-13115
musculoskeletal system1.22e-12167
endothelium8.52e-0818
blood vessel endothelium8.52e-0818
cardiovascular system endothelium8.52e-0818
vasculature1.02e-0779
vascular system1.02e-0779
vessel2.03e-0769


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.