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Coexpression cluster:C3812: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0002390!4.12e-51!98;UBERON:0003061!4.12e-51!98;UBERON:0002193!3.02e-46!108;UBERON:0002371!5.92e-42!76;UBERON:0002405!2.75e-37!93;UBERON:0001474!3.94e-37!82;UBERON:0004765!9.33e-33!90;UBERON:0001434!4.25e-28!100;UBERON:0007023!1.07e-21!114;UBERON:0003081!7.69e-21!203;UBERON:0002204!7.63e-13!167;UBERON:0000926!8.22e-11!315;UBERON:0004120!8.22e-11!315;UBERON:0006603!8.22e-11!315;UBERON:0000178!1.82e-09!15;UBERON:0000179!1.82e-09!15;UBERON:0000463!1.82e-09!15;UBERON:0000479!2.93e-07!773
|ontology_enrichment_uberon=UBERON:0002390!4.12e-51!98;UBERON:0003061!4.12e-51!98;UBERON:0002193!3.02e-46!108;UBERON:0002371!5.92e-42!76;UBERON:0002405!2.75e-37!93;UBERON:0001474!3.94e-37!82;UBERON:0004765!9.33e-33!90;UBERON:0001434!4.25e-28!100;UBERON:0007023!1.07e-21!114;UBERON:0003081!7.69e-21!203;UBERON:0002204!7.63e-13!167;UBERON:0000926!8.22e-11!315;UBERON:0004120!8.22e-11!315;UBERON:0006603!8.22e-11!315;UBERON:0000178!1.82e-09!15;UBERON:0000179!1.82e-09!15;UBERON:0000463!1.82e-09!15;UBERON:0000479!2.93e-07!773
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}}
}}

Revision as of 16:22, 26 November 2012


Full id: C3812_Eosinophils_Macrophage_CD14_Monocytederived_Neutrophils_Mesenchymal_CD14CD16



Phase1 CAGE Peaks

Hg19::chr19:50015870..50015934,+p2@FCGRT
Hg19::chr6:31583432..31583465,+p4@AIF1
Hg19::chr6:31583467..31583478,+p8@AIF1


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:0019864IgG binding0.0254270943443241
GO:0019865immunoglobulin binding0.0254270943443241



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 leukocyte4.60e-5972
macrophage dendritic cell progenitor2.70e-5861
monopoietic cell2.14e-5659
monocyte2.14e-5659
monoblast2.14e-5659
promonocyte2.14e-5659
granulocyte monocyte progenitor cell7.30e-5167
defensive cell3.62e-5048
phagocyte3.62e-5048
myeloid lineage restricted progenitor cell6.95e-4866
myeloid cell8.10e-48108
common myeloid progenitor8.10e-48108
classical monocyte2.92e-4342
CD14-positive, CD16-negative classical monocyte2.92e-4342
leukocyte1.50e-38136
hematopoietic stem cell4.31e-35168
angioblastic mesenchymal cell4.31e-35168
hematopoietic oligopotent progenitor cell7.94e-32161
hematopoietic multipotent progenitor cell7.94e-32161
hematopoietic cell1.36e-31177
nongranular leukocyte2.44e-31115
hematopoietic lineage restricted progenitor cell6.34e-28120
stuff accumulating cell1.64e-2287
intermediate monocyte1.53e-109
CD14-positive, CD16-positive monocyte1.53e-109
granulocyte6.11e-108
macrophage3.75e-086
Uber Anatomy
Ontology termp-valuen
hematopoietic system4.12e-5198
blood island4.12e-5198
hemolymphoid system3.02e-46108
bone marrow5.92e-4276
immune system2.75e-3793
bone element3.94e-3782
skeletal element9.33e-3390
skeletal system4.25e-28100
adult organism1.07e-21114
lateral plate mesoderm7.69e-21203
musculoskeletal system7.63e-13167
mesoderm8.22e-11315
mesoderm-derived structure8.22e-11315
presumptive mesoderm8.22e-11315
blood1.82e-0915
haemolymphatic fluid1.82e-0915
organism substance1.82e-0915
tissue2.93e-07773


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)

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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.

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