Personal tools

Coexpression cluster:C4532: Difference between revisions

From FANTOM5_SSTAR

Jump to: navigation, search
(Created page with "{{Coexpression_clusters |full_id=C4532_Mast_CD14_Eosinophils_caudate_putamen_Endothelial_diencephalon |id=C4532 }}")
 
No edit summary
Line 2: Line 2:
|full_id=C4532_Mast_CD14_Eosinophils_caudate_putamen_Endothelial_diencephalon
|full_id=C4532_Mast_CD14_Eosinophils_caudate_putamen_Endothelial_diencephalon
|id=C4532
|id=C4532
|ontology_enrichment_celltype=CL:0000766!8.21e-36!76;CL:0000557!8.21e-33!71;CL:0000839!2.92e-30!70;CL:0002009!1.40e-29!65;CL:0000763!9.00e-29!112;CL:0000049!9.00e-29!112;CL:0002194!2.35e-28!63;CL:0000576!2.35e-28!63;CL:0000040!2.35e-28!63;CL:0000559!2.35e-28!63;CL:0002057!1.84e-27!42;CL:0000860!2.70e-27!45;CL:0000738!4.04e-20!140;CL:0000037!9.78e-20!172;CL:0000566!9.78e-20!172;CL:0002032!1.76e-17!165;CL:0000837!1.76e-17!165;CL:0000988!2.12e-16!182;CL:0002031!1.39e-15!124;CL:0002087!2.42e-14!119
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002193!5.19e-34!112;UBERON:0002390!7.96e-32!102;UBERON:0003061!7.96e-32!102;UBERON:0002371!5.74e-30!80;UBERON:0001474!1.81e-26!86;UBERON:0002405!1.73e-24!115;UBERON:0004765!6.05e-19!101;UBERON:0001434!6.05e-19!101;UBERON:0007023!2.00e-13!115;UBERON:0003080!1.19e-08!42;UBERON:0003081!1.52e-08!216;UBERON:0002780!2.02e-08!41;UBERON:0001890!2.02e-08!41;UBERON:0006240!2.02e-08!41;UBERON:0002616!7.49e-08!59;UBERON:0001049!1.15e-07!57;UBERON:0005068!1.15e-07!57;UBERON:0006241!1.15e-07!57;UBERON:0007135!1.15e-07!57;UBERON:0003056!3.91e-07!61;UBERON:0002050!5.32e-07!605;UBERON:0005423!5.32e-07!605;UBERON:0001869!5.35e-07!32;UBERON:0000062!6.56e-07!511;UBERON:0000923!6.59e-07!604;UBERON:0005291!6.59e-07!604;UBERON:0006598!6.59e-07!604;UBERON:0002532!6.59e-07!604;UBERON:0002204!7.24e-07!167;UBERON:0003075!8.39e-07!86;UBERON:0007284!8.39e-07!86
}}
}}

Revision as of 14:49, 21 May 2012


Full id: C4532_Mast_CD14_Eosinophils_caudate_putamen_Endothelial_diencephalon



Phase1 CAGE Peaks

Hg19::chr5:94417266..94417281,-p3@MCTP1
Hg19::chr5:94417287..94417295,-p4@MCTP1
Hg19::chr5:94417314..94417337,-p2@MCTP1


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>


Uber Anatomy
Ontology termp-valuen
hemolymphoid system5.19e-34112
hematopoietic system7.96e-32102
blood island7.96e-32102
bone marrow5.74e-3080
bone element1.81e-2686
immune system1.73e-24115
skeletal element6.05e-19101
skeletal system6.05e-19101
adult organism2.00e-13115
anterior neural tube1.19e-0842
lateral plate mesoderm1.52e-08216
regional part of forebrain2.02e-0841
forebrain2.02e-0841
future forebrain2.02e-0841
regional part of brain7.49e-0859
neural tube1.15e-0757
neural rod1.15e-0757
future spinal cord1.15e-0757
neural keel1.15e-0757
pre-chordal neural plate3.91e-0761
embryonic structure5.32e-07605
developing anatomical structure5.32e-07605
cerebral hemisphere5.35e-0732
organ6.56e-07511
germ layer6.59e-07604
embryonic tissue6.59e-07604
presumptive structure6.59e-07604
epiblast (generic)6.59e-07604
musculoskeletal system7.24e-07167
neural plate8.39e-0786
presumptive neural plate8.39e-0786


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.