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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002390!2.94e-53!102;UBERON:0003061!2.94e-53!102;UBERON:0002193!6.58e-50!112;UBERON:0002371!3.36e-37!80;UBERON:0001474!1.80e-33!86;UBERON:0004765!2.62e-27!101;UBERON:0001434!2.62e-27!101;UBERON:0002405!2.18e-26!115;UBERON:0003081!1.45e-20!216;UBERON:0000178!2.58e-18!15;UBERON:0000179!2.58e-18!15;UBERON:0000463!2.58e-18!15;UBERON:0002204!6.63e-12!167;UBERON:0007023!1.89e-11!115;UBERON:0000926!1.62e-07!448;UBERON:0004120!1.62e-07!448;UBERON:0006603!1.62e-07!448
|ontology_enrichment_uberon=UBERON:0002390!2.94e-53!102;UBERON:0003061!2.94e-53!102;UBERON:0002193!6.58e-50!112;UBERON:0002371!3.36e-37!80;UBERON:0001474!1.80e-33!86;UBERON:0004765!2.62e-27!101;UBERON:0001434!2.62e-27!101;UBERON:0002405!2.18e-26!115;UBERON:0003081!1.45e-20!216;UBERON:0000178!2.58e-18!15;UBERON:0000179!2.58e-18!15;UBERON:0000463!2.58e-18!15;UBERON:0002204!6.63e-12!167;UBERON:0007023!1.89e-11!115;UBERON:0000926!1.62e-07!448;UBERON:0004120!1.62e-07!448;UBERON:0006603!1.62e-07!448
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}}
}}

Revision as of 19:46, 8 August 2012


Full id: C4142_trachea_CD14_Whole_immature_Macrophage_Monocytederived_Neutrophils



Phase1 CAGE Peaks

Hg19::chr2:169923504..169923517,+p12@DHRS9
Hg19::chr2:169923651..169923667,+p7@DHRS9
Hg19::chr2:169923690..169923703,+p8@DHRS9


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 leukocyte5.35e-5076
macrophage dendritic cell progenitor1.27e-4765
monopoietic cell7.04e-4563
monocyte7.04e-4563
monoblast7.04e-4563
promonocyte7.04e-4563
myeloid lineage restricted progenitor cell3.50e-4470
granulocyte monocyte progenitor cell5.44e-4471
CD14-positive, CD16-negative classical monocyte1.13e-4342
classical monocyte6.79e-4045
myeloid cell1.80e-39112
common myeloid progenitor1.80e-39112
leukocyte3.58e-31140
hematopoietic cell1.28e-25182
hematopoietic stem cell2.39e-25172
angioblastic mesenchymal cell2.39e-25172
hematopoietic lineage restricted progenitor cell1.43e-24124
hematopoietic oligopotent progenitor cell2.08e-24165
hematopoietic multipotent progenitor cell2.08e-24165
nongranular leukocyte9.57e-24119
intermediate monocyte2.51e-119
CD14-positive, CD16-positive monocyte2.51e-119
granulocyte5.35e-098
conventional dendritic cell3.67e-088
blood cell5.52e-0811
circulating cell1.92e-076
immature conventional dendritic cell5.03e-075
common dendritic progenitor5.03e-075
Uber Anatomy
Ontology termp-valuen
hematopoietic system2.94e-53102
blood island2.94e-53102
hemolymphoid system6.58e-50112
bone marrow3.36e-3780
bone element1.80e-3386
skeletal element2.62e-27101
skeletal system2.62e-27101
immune system2.18e-26115
lateral plate mesoderm1.45e-20216
blood2.58e-1815
haemolymphatic fluid2.58e-1815
organism substance2.58e-1815
musculoskeletal system6.63e-12167
adult organism1.89e-11115
mesoderm1.62e-07448
mesoderm-derived structure1.62e-07448
presumptive mesoderm1.62e-07448


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.