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Difference between revisions of "Coexpression cluster:C870"

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|gostat_on_coexpression_clusters=GO:0043124!negative regulation of I-kappaB kinase/NF-kappaB cascade!0.0102437301306959!7128
 
|gostat_on_coexpression_clusters=GO:0043124!negative regulation of I-kappaB kinase/NF-kappaB cascade!0.0102437301306959!7128
 
|id=C870
 
|id=C870
 +
|ontology_enrichment_celltype=CL:0000766!1.30e-30!76;CL:0002057!4.24e-30!42;CL:0000860!5.03e-30!45;CL:0000557!8.34e-29!71;CL:0000839!2.73e-25!70;CL:0002009!4.14e-25!65;CL:0000738!1.14e-24!140;CL:0002194!6.41e-24!63;CL:0000576!6.41e-24!63;CL:0000040!6.41e-24!63;CL:0000559!6.41e-24!63;CL:0000763!5.59e-21!112;CL:0000049!5.59e-21!112;CL:0002031!1.27e-20!124;CL:0000037!4.22e-20!172;CL:0000566!4.22e-20!172;CL:0000988!9.88e-20!182;CL:0002087!2.64e-19!119;CL:0002032!2.04e-18!165;CL:0000837!2.04e-18!165;CL:0000134!1.89e-08!358;CL:0002320!1.99e-08!365;CL:0002393!1.26e-07!9;CL:0002397!1.26e-07!9;CL:0000048!5.59e-07!430
 +
|ontology_enrichment_disease=
 +
|ontology_enrichment_uberon=UBERON:0002390!6.99e-28!102;UBERON:0003061!6.99e-28!102;UBERON:0002371!3.88e-25!80;UBERON:0002193!1.40e-24!112;UBERON:0001474!3.21e-23!86;UBERON:0002405!3.91e-19!115;UBERON:0004765!1.05e-17!101;UBERON:0001434!1.05e-17!101;UBERON:0003081!5.85e-17!216;UBERON:0002204!6.32e-09!167;UBERON:0002384!5.89e-08!375
 
}}
 
}}

Revision as of 05:58, 21 May 2012


Full id: C870_CD14_Mast_Basophils_Peripheral_Eosinophils_Endothelial_Natural



Phase1 CAGE Peaks

Hg19::chr10:17010725..17010731,-p@chr10:17010725..17010731
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Hg19::chr11:93256270..93256311,+p@chr11:93256270..93256311
+
Hg19::chr19:13953553..13953571,+p@chr19:13953553..13953571
+
Hg19::chr4:139937826..139937827,+p@chr4:139937826..139937827
+
Hg19::chr4:140656102..140656142,-p@chr4:140656102..140656142
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Hg19::chr4:140657557..140657602,-p@chr4:140657557..140657602
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Hg19::chr4:40058783..40058795,-p3@LOC344967
Hg19::chr5:172194496..172194500,-p@chr5:172194496..172194500
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Hg19::chr6:138192305..138192312,+p51@TNFAIP3


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:0043124negative regulation of I-kappaB kinase/NF-kappaB cascade0.0102437301306959



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 leukocyte1.30e-3076
CD14-positive, CD16-negative classical monocyte4.24e-3042
classical monocyte5.03e-3045
granulocyte monocyte progenitor cell8.34e-2971
myeloid lineage restricted progenitor cell2.73e-2570
macrophage dendritic cell progenitor4.14e-2565
leukocyte1.14e-24140
monopoietic cell6.41e-2463
monocyte6.41e-2463
monoblast6.41e-2463
promonocyte6.41e-2463
myeloid cell5.59e-21112
common myeloid progenitor5.59e-21112
hematopoietic lineage restricted progenitor cell1.27e-20124
hematopoietic stem cell4.22e-20172
angioblastic mesenchymal cell4.22e-20172
hematopoietic cell9.88e-20182
nongranular leukocyte2.64e-19119
hematopoietic oligopotent progenitor cell2.04e-18165
hematopoietic multipotent progenitor cell2.04e-18165
mesenchymal cell1.89e-08358
connective tissue cell1.99e-08365
intermediate monocyte1.26e-079
CD14-positive, CD16-positive monocyte1.26e-079
multi fate stem cell5.59e-07430
Uber Anatomy
Ontology termp-valuen
hematopoietic system6.99e-28102
blood island6.99e-28102
bone marrow3.88e-2580
hemolymphoid system1.40e-24112
bone element3.21e-2386
immune system3.91e-19115
skeletal element1.05e-17101
skeletal system1.05e-17101
lateral plate mesoderm5.85e-17216
musculoskeletal system6.32e-09167
connective tissue5.89e-08375


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.