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Coexpression cluster:C4466: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0002390!2.52e-48!98;UBERON:0003061!2.52e-48!98;UBERON:0002193!3.58e-46!108;UBERON:0002405!1.77e-38!93;UBERON:0002371!2.76e-35!76;UBERON:0001474!9.88e-32!82;UBERON:0004765!9.72e-28!90;UBERON:0001434!1.16e-23!100;UBERON:0003081!3.66e-17!203;UBERON:0002204!9.10e-11!167;UBERON:0000926!2.58e-09!315;UBERON:0004120!2.58e-09!315;UBERON:0006603!2.58e-09!315;UBERON:0007023!1.08e-08!114;UBERON:0000178!4.12e-08!15;UBERON:0000179!4.12e-08!15;UBERON:0000463!4.12e-08!15
|ontology_enrichment_uberon=UBERON:0002390!2.52e-48!98;UBERON:0003061!2.52e-48!98;UBERON:0002193!3.58e-46!108;UBERON:0002405!1.77e-38!93;UBERON:0002371!2.76e-35!76;UBERON:0001474!9.88e-32!82;UBERON:0004765!9.72e-28!90;UBERON:0001434!1.16e-23!100;UBERON:0003081!3.66e-17!203;UBERON:0002204!9.10e-11!167;UBERON:0000926!2.58e-09!315;UBERON:0004120!2.58e-09!315;UBERON:0006603!2.58e-09!315;UBERON:0007023!1.08e-08!114;UBERON:0000178!4.12e-08!15;UBERON:0000179!4.12e-08!15;UBERON:0000463!4.12e-08!15
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}}
}}

Revision as of 16:45, 26 November 2012


Full id: C4466_acute_biphenotypic_Dendritic_Monocytederived_migratory_granulocyte_CD34



Phase1 CAGE Peaks

Hg19::chr5:134787950..134787969,-p2@TIFAB
Hg19::chr5:134787984..134788005,-p4@TIFAB
Hg19::chr5:134788010..134788046,-p1@TIFAB


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
macrophage dendritic cell progenitor7.00e-4061
granulocyte monocyte progenitor cell1.92e-3967
myeloid cell9.50e-38108
common myeloid progenitor9.50e-38108
monopoietic cell8.10e-3759
monocyte8.10e-3759
monoblast8.10e-3759
promonocyte8.10e-3759
myeloid lineage restricted progenitor cell1.79e-3366
myeloid leukocyte2.78e-3372
hematopoietic stem cell1.69e-29168
angioblastic mesenchymal cell1.69e-29168
leukocyte3.94e-27136
hematopoietic cell4.71e-27177
hematopoietic oligopotent progenitor cell4.65e-24161
hematopoietic multipotent progenitor cell4.65e-24161
defensive cell1.49e-2348
phagocyte1.49e-2348
dendritic cell3.05e-2210
nongranular leukocyte2.12e-20115
hematopoietic lineage restricted progenitor cell2.77e-19120
conventional dendritic cell2.33e-188
classical monocyte7.04e-1642
CD14-positive, CD16-negative classical monocyte7.04e-1642
immature conventional dendritic cell8.80e-135
common dendritic progenitor8.80e-135
macrophage8.60e-126
Langerhans cell9.31e-115
stuff accumulating cell2.36e-0987
plasmacytoid dendritic cell1.69e-073
adult endothelial progenitor cell4.69e-073
Uber Anatomy
Ontology termp-valuen
hematopoietic system2.52e-4898
blood island2.52e-4898
hemolymphoid system3.58e-46108
immune system1.77e-3893
bone marrow2.76e-3576
bone element9.88e-3282
skeletal element9.72e-2890
skeletal system1.16e-23100
lateral plate mesoderm3.66e-17203
musculoskeletal system9.10e-11167
mesoderm2.58e-09315
mesoderm-derived structure2.58e-09315
presumptive mesoderm2.58e-09315
adult organism1.08e-08114
blood4.12e-0815
haemolymphatic fluid4.12e-0815
organism substance4.12e-0815


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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