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Coexpression cluster:C2211: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0002390!1.22e-19!98;UBERON:0003061!1.22e-19!98;UBERON:0002371!2.38e-19!76;UBERON:0002405!2.74e-19!93;UBERON:0002193!5.58e-19!108;UBERON:0001474!4.80e-18!82;UBERON:0004765!1.70e-14!90;UBERON:0001434!3.17e-12!100;UBERON:0007023!1.90e-09!114;UBERON:0003081!2.70e-08!203
|ontology_enrichment_uberon=UBERON:0002390!1.22e-19!98;UBERON:0003061!1.22e-19!98;UBERON:0002371!2.38e-19!76;UBERON:0002405!2.74e-19!93;UBERON:0002193!5.58e-19!108;UBERON:0001474!4.80e-18!82;UBERON:0004765!1.70e-14!90;UBERON:0001434!3.17e-12!100;UBERON:0007023!1.90e-09!114;UBERON:0003081!2.70e-08!203
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}}
}}

Revision as of 15:22, 26 November 2012


Full id: C2211_Mast_CD19_CD34_Dendritic_immature_Peripheral_CD14



Phase1 CAGE Peaks

Hg19::chr12:52400719..52400736,+p1@GRASP
Hg19::chr12:52401600..52401619,+p@chr12:52401600..52401619
+
Hg19::chr18:77155942..77155951,+p3@NFATC1
Hg19::chr19:39898400..39898420,+p@chr19:39898400..39898420
+


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:0005528FK506 binding0.00968359077495344
GO:0005527macrolide binding0.00968359077495344
GO:0008144drug binding0.0184414052499597



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
leukocyte7.82e-37136
classical monocyte6.52e-3042
CD14-positive, CD16-negative classical monocyte6.52e-3042
hematopoietic lineage restricted progenitor cell1.16e-27120
myeloid leukocyte2.39e-2672
hematopoietic stem cell4.69e-26168
angioblastic mesenchymal cell4.69e-26168
nongranular leukocyte9.14e-26115
defensive cell1.23e-2348
phagocyte1.23e-2348
hematopoietic cell1.91e-23177
granulocyte monocyte progenitor cell4.02e-2367
hematopoietic oligopotent progenitor cell5.05e-23161
hematopoietic multipotent progenitor cell5.05e-23161
myeloid lineage restricted progenitor cell9.49e-2066
macrophage dendritic cell progenitor2.16e-1961
monopoietic cell6.37e-1859
monocyte6.37e-1859
monoblast6.37e-1859
promonocyte6.37e-1859
myeloid cell9.39e-16108
common myeloid progenitor9.39e-16108
stuff accumulating cell7.66e-1587
intermediate monocyte3.37e-089
CD14-positive, CD16-positive monocyte3.37e-089
lymphoid lineage restricted progenitor cell1.42e-0752
lymphocyte3.12e-0753
common lymphoid progenitor3.12e-0753
granulocyte3.66e-078
Uber Anatomy
Ontology termp-valuen
hematopoietic system1.22e-1998
blood island1.22e-1998
bone marrow2.38e-1976
immune system2.74e-1993
hemolymphoid system5.58e-19108
bone element4.80e-1882
skeletal element1.70e-1490
skeletal system3.17e-12100
adult organism1.90e-09114
lateral plate mesoderm2.70e-08203


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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