Personal tools

Coexpression cluster:C597: Difference between revisions

From FANTOM5_SSTAR

Jump to: navigation, search
No edit summary
No edit summary
Line 3: Line 3:
|gostat_on_coexpression_clusters=GO:0000185!activation of MAPKKK activity!0.0119487317818538!4616$GO:0000186!activation of MAPKK activity!0.0119487317818538!4616$GO:0008440!inositol trisphosphate 3-kinase activity!0.0119487317818538!80271$GO:0051766!inositol trisphosphate kinase activity!0.0119487317818538!80271$GO:0006469!negative regulation of protein kinase activity!0.0265308474773421!4616$GO:0033673!negative regulation of kinase activity!0.0265308474773421!4616$GO:0051348!negative regulation of transferase activity!0.0265308474773421!4616$GO:0004428!inositol or phosphatidylinositol kinase activity!0.0265308474773421!80271$GO:0032147!activation of protein kinase activity!0.0265308474773421!4616$GO:0043086!negative regulation of catalytic activity!0.0296692149196469!4616$GO:0045860!positive regulation of protein kinase activity!0.0340708838298483!4616$GO:0005516!calmodulin binding!0.0340708838298483!80271$GO:0033674!positive regulation of kinase activity!0.0340708838298483!4616$GO:0051347!positive regulation of transferase activity!0.0340708838298483!4616$GO:0000165!MAPKKK cascade!0.0340708838298483!4616$GO:0045859!regulation of protein kinase activity!0.0458342550450001!4616$GO:0043549!regulation of kinase activity!0.0458342550450001!4616$GO:0051338!regulation of transferase activity!0.0458342550450001!4616$GO:0043085!positive regulation of catalytic activity!0.0458342550450001!4616
|gostat_on_coexpression_clusters=GO:0000185!activation of MAPKKK activity!0.0119487317818538!4616$GO:0000186!activation of MAPKK activity!0.0119487317818538!4616$GO:0008440!inositol trisphosphate 3-kinase activity!0.0119487317818538!80271$GO:0051766!inositol trisphosphate kinase activity!0.0119487317818538!80271$GO:0006469!negative regulation of protein kinase activity!0.0265308474773421!4616$GO:0033673!negative regulation of kinase activity!0.0265308474773421!4616$GO:0051348!negative regulation of transferase activity!0.0265308474773421!4616$GO:0004428!inositol or phosphatidylinositol kinase activity!0.0265308474773421!80271$GO:0032147!activation of protein kinase activity!0.0265308474773421!4616$GO:0043086!negative regulation of catalytic activity!0.0296692149196469!4616$GO:0045860!positive regulation of protein kinase activity!0.0340708838298483!4616$GO:0005516!calmodulin binding!0.0340708838298483!80271$GO:0033674!positive regulation of kinase activity!0.0340708838298483!4616$GO:0051347!positive regulation of transferase activity!0.0340708838298483!4616$GO:0000165!MAPKKK cascade!0.0340708838298483!4616$GO:0045859!regulation of protein kinase activity!0.0458342550450001!4616$GO:0043549!regulation of kinase activity!0.0458342550450001!4616$GO:0051338!regulation of transferase activity!0.0458342550450001!4616$GO:0043085!positive regulation of catalytic activity!0.0458342550450001!4616
|id=C597
|id=C597
|ontology_enrichment_celltype=CL:0002057!3.34e-20!42;CL:0000860!7.72e-17!45;CL:0000766!2.92e-13!76;CL:0000557!8.84e-11!71;CL:0002009!3.05e-10!65;CL:0002194!2.74e-09!63;CL:0000576!2.74e-09!63;CL:0000040!2.74e-09!63;CL:0000559!2.74e-09!63;CL:0000839!4.80e-09!70
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002405!2.59e-10!115;UBERON:0000062!7.89e-10!511;UBERON:0002371!4.72e-09!80;UBERON:0000468!4.66e-08!659;UBERON:0001474!5.59e-08!86;UBERON:0000467!1.20e-07!625;UBERON:0000480!1.95e-07!626;UBERON:0002193!2.44e-07!112;UBERON:0003081!8.44e-07!216
}}
}}

Revision as of 14:55, 21 May 2012


Full id: C597_CD14_mature_immature_Eosinophils_Mast_embryonic_chorionic



Phase1 CAGE Peaks

Hg19::chr13:28615672..28615689,-p@chr13:28615672..28615689
-
Hg19::chr17:19091325..19091326,+p1@SNORD3A
Hg19::chr17:76320827..76320838,+p@chr17:76320827..76320838
+
Hg19::chr19:2476116..2476132,+p1@GADD45B
Hg19::chr19:41222998..41223057,+p1@ITPKC
Hg19::chr19:45350840..45350859,-p@chr19:45350840..45350859
-
Hg19::chr19:45947096..45947113,+p@chr19:45947096..45947113
+
Hg19::chr1:39324762..39324790,+p@chr1:39324762..39324790
+
Hg19::chr1:85461941..85461949,+p@chr1:85461941..85461949
+
Hg19::chr21:38740608..38740619,-p@chr21:38740608..38740619
-
Hg19::chr2:102759127..102759136,-p@chr2:102759127..102759136
-
Hg19::chr5:395563..395569,+p@chr5:395563..395569
+
Hg19::chr6:14109177..14109181,+p@chr6:14109177..14109181
+
Hg19::chr7:151033644..151033667,+p@chr7:151033644..151033667
+
Hg19::chrX:20284429..20284435,+p@chrX:20284429..20284435
+


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:0000185activation of MAPKKK activity0.0119487317818538
GO:0000186activation of MAPKK activity0.0119487317818538
GO:0008440inositol trisphosphate 3-kinase activity0.0119487317818538
GO:0051766inositol trisphosphate kinase activity0.0119487317818538
GO:0006469negative regulation of protein kinase activity0.0265308474773421
GO:0033673negative regulation of kinase activity0.0265308474773421
GO:0051348negative regulation of transferase activity0.0265308474773421
GO:0004428inositol or phosphatidylinositol kinase activity0.0265308474773421
GO:0032147activation of protein kinase activity0.0265308474773421
GO:0043086negative regulation of catalytic activity0.0296692149196469
GO:0045860positive regulation of protein kinase activity0.0340708838298483
GO:0005516calmodulin binding0.0340708838298483
GO:0033674positive regulation of kinase activity0.0340708838298483
GO:0051347positive regulation of transferase activity0.0340708838298483
GO:0000165MAPKKK cascade0.0340708838298483
GO:0045859regulation of protein kinase activity0.0458342550450001
GO:0043549regulation of kinase activity0.0458342550450001
GO:0051338regulation of transferase activity0.0458342550450001
GO:0043085positive regulation of catalytic activity0.0458342550450001



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>


Uber Anatomy
Ontology termp-valuen
immune system2.59e-10115
organ7.89e-10511
bone marrow4.72e-0980
multi-cellular organism4.66e-08659
bone element5.59e-0886
anatomical system1.20e-07625
anatomical group1.95e-07626
hemolymphoid system2.44e-07112
lateral plate mesoderm8.44e-07216


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.