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Coexpression cluster:C3064: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0002390!8.09e-25!98;UBERON:0003061!8.09e-25!98;UBERON:0002193!3.38e-22!108;UBERON:0002371!3.75e-19!76;UBERON:0002405!3.38e-18!93;UBERON:0001474!3.27e-17!82;UBERON:0004765!7.10e-15!90;UBERON:0001434!8.89e-12!100;UBERON:0002384!1.83e-08!371;UBERON:0003081!1.69e-07!203
|ontology_enrichment_uberon=UBERON:0002390!8.09e-25!98;UBERON:0003061!8.09e-25!98;UBERON:0002193!3.38e-22!108;UBERON:0002371!3.75e-19!76;UBERON:0002405!3.38e-18!93;UBERON:0001474!3.27e-17!82;UBERON:0004765!7.10e-15!90;UBERON:0001434!8.89e-12!100;UBERON:0002384!1.83e-08!371;UBERON:0003081!1.69e-07!203
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
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}}
}}

Revision as of 15:54, 26 November 2012


Full id: C3064_CD34_acute_Mast_Eosinophils_granulocyte_Basophils_CD133



Phase1 CAGE Peaks

Hg19::chr10:98591801..98591841,+p3@LCOR
Hg19::chr14:70655839..70655843,+p@chr14:70655839..70655843
+
Hg19::chr3:50375560..50375605,-p8@RASSF1


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:0048523negative regulation of cellular process0.0453595978101755
GO:0048519negative regulation of biological process0.0453595978101755



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
hematopoietic cell7.05e-42177
hematopoietic stem cell3.13e-41168
angioblastic mesenchymal cell3.13e-41168
hematopoietic oligopotent progenitor cell6.67e-37161
hematopoietic multipotent progenitor cell6.67e-37161
myeloid cell2.83e-34108
common myeloid progenitor2.83e-34108
leukocyte1.75e-31136
myeloid leukocyte9.13e-3072
hematopoietic lineage restricted progenitor cell3.03e-25120
myeloid lineage restricted progenitor cell2.98e-2466
nongranular leukocyte8.52e-23115
granulocyte monocyte progenitor cell1.40e-2267
classical monocyte2.07e-2042
CD14-positive, CD16-negative classical monocyte2.07e-2042
defensive cell5.91e-2048
phagocyte5.91e-2048
monopoietic cell1.07e-1859
monocyte1.07e-1859
monoblast1.07e-1859
promonocyte1.07e-1859
macrophage dendritic cell progenitor1.32e-1761
mesenchymal cell2.59e-09354
granulocyte3.20e-098
intermediate monocyte4.07e-099
CD14-positive, CD16-positive monocyte4.07e-099
connective tissue cell7.88e-09361
stuff accumulating cell1.61e-0887
blood cell7.00e-0811
motile cell9.59e-08386
circulating cell2.56e-076
Uber Anatomy
Ontology termp-valuen
hematopoietic system8.09e-2598
blood island8.09e-2598
hemolymphoid system3.38e-22108
bone marrow3.75e-1976
immune system3.38e-1893
bone element3.27e-1782
skeletal element7.10e-1590
skeletal system8.89e-12100
connective tissue1.83e-08371
lateral plate mesoderm1.69e-07203


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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