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Difference between revisions of "Coexpression cluster:C1464"

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|gostat_on_coexpression_clusters=GO:0016286!small conductance calcium-activated potassium channel activity!0.0197801226784526!3782$GO:0015269!calcium-activated potassium channel activity!0.0420142001768272!3782$GO:0022839!ion gated channel activity!0.0420142001768272!3782$GO:0005227!calcium activated cation channel activity!0.0420142001768272!3782
 
|gostat_on_coexpression_clusters=GO:0016286!small conductance calcium-activated potassium channel activity!0.0197801226784526!3782$GO:0015269!calcium-activated potassium channel activity!0.0420142001768272!3782$GO:0022839!ion gated channel activity!0.0420142001768272!3782$GO:0005227!calcium activated cation channel activity!0.0420142001768272!3782
 
|id=C1464
 
|id=C1464
|ontology_enrichment_celltype=CL:0000945!1.50e-23!24;CL:0000826!1.50e-23!24;CL:0000542!5.91e-14!53;CL:0000051!5.91e-14!53;CL:0000838!5.76e-13!52;CL:0000236!1.19e-08!14
+
|ontology_enrichment_celltype=CL:0000945!7.03e-38!24;CL:0000826!7.03e-38!24;CL:0000542!7.30e-22!53;CL:0000051!7.30e-22!53;CL:0002242!5.76e-21!55;CL:0000838!3.37e-19!52;CL:0000785!2.16e-14!2;CL:0000955!2.16e-14!2;CL:0000818!2.16e-14!2;CL:0000954!2.16e-14!2;CL:0000816!2.16e-14!2;CL:0000817!6.84e-10!3;CL:0002087!1.76e-08!115;CL:0000819!3.55e-08!1;CL:0000946!6.52e-08!1;CL:0000786!6.52e-08!1;CL:0000980!6.52e-08!1;CL:0002031!8.15e-07!120;CL:0000738!9.08e-07!136
|ontology_enrichment_disease=
+
|ontology_enrichment_disease=DOID:0060058!7.50e-24!10;DOID:2531!3.36e-09!51;DOID:0060083!3.36e-09!51;DOID:4960!3.10e-08!1;DOID:0070004!3.10e-08!1;DOID:0060073!3.55e-08!1;DOID:8675!3.55e-08!1;DOID:630!4.35e-08!1;DOID:0050177!4.35e-08!1;DOID:0050427!4.35e-08!1;DOID:2355!7.45e-08!1;DOID:12603!9.72e-08!1
|ontology_enrichment_uberon=UBERON:0007023!1.11e-14!115;UBERON:0004177!5.53e-08!7
+
|ontology_enrichment_uberon=UBERON:0002106!1.02e-09!3;UBERON:0004854!1.02e-09!3;UBERON:0009034!1.02e-09!3;UBERON:0002095!1.02e-09!3;UBERON:0004782!1.02e-09!3;UBERON:0003281!1.02e-09!3;UBERON:0009664!1.02e-09!3;UBERON:0002296!1.02e-09!3;UBERON:0005602!1.02e-09!3;UBERON:0001179!1.02e-09!3;UBERON:0006293!1.02e-09!3;UBERON:0007023!2.03e-09!114;UBERON:0002372!6.97e-08!1;UBERON:0001961!6.97e-08!1;UBERON:0001744!6.97e-08!1;UBERON:0001735!6.97e-08!1;UBERON:0000029!8.51e-08!1;UBERON:0001736!9.10e-08!1;UBERON:0006298!9.10e-08!1;UBERON:0001154!1.26e-07!1;UBERON:0001153!1.26e-07!1;UBERON:0001045!1.26e-07!1;UBERON:0002363!1.64e-07!1;UBERON:0007645!1.64e-07!1;UBERON:0007647!1.64e-07!1;UBERON:0010115!1.64e-07!1
 
|tf_chipseq_enrich=BATF#10538;4:16.2385345282024:3.98325915717398e-05:0.000742605503598881!EBF1#1879;4:5.93764456437934:0.00197515363642171:0.0114908127581466!MEF2A#4205;4:12.495487273096:0.000111333627719979:0.00154642542165805!NFKB1#4790;5:4.5733861868282:0.0010219625937113:0.0072464356931641!POLR2A#5430;6:2.14745317655807:0.0101957067681878:0.0380404908246201!POU2F2#5452;5:7.58843671478544:8.70203885493171e-05:0.00129077153241047!TAF1#6872;5:2.78587190478774:0.0107863634029041:0.039796411044473
 
|tf_chipseq_enrich=BATF#10538;4:16.2385345282024:3.98325915717398e-05:0.000742605503598881!EBF1#1879;4:5.93764456437934:0.00197515363642171:0.0114908127581466!MEF2A#4205;4:12.495487273096:0.000111333627719979:0.00154642542165805!NFKB1#4790;5:4.5733861868282:0.0010219625937113:0.0072464356931641!POLR2A#5430;6:2.14745317655807:0.0101957067681878:0.0380404908246201!POU2F2#5452;5:7.58843671478544:8.70203885493171e-05:0.00129077153241047!TAF1#6872;5:2.78587190478774:0.0107863634029041:0.039796411044473
 
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}}
 
}}

Revision as of 02:19, 19 October 2012


Full id: C1464_Burkitt_myeloma_lymphangiectasia_splenic_b_xeroderma_B



Phase1 CAGE Peaks

  Short description
Hg19::chr1:154832272..154832279,- p19@KCNN3
Hg19::chr1:154832291..154832302,- p14@KCNN3
Hg19::chr1:154832316..154832336,- p5@KCNN3
Hg19::chr1:154832342..154832360,- p6@KCNN3
Hg19::chr21:43283391..43283426,- p4@PRDM15
Hg19::chr4:8437677..8437699,- -
p@chr4:8437677..8437699


Enriched pathways on this co-expression clusterSummary:
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.
Analyst: Emmanuel Dimont

link to source dataset
data


No results for this coexpression

Enriched Gene Ontology terms on this co-expression clusterSummary: 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.
Analyst: Erik Arner

link to source dataset
data


GO IDGO nameFDR corrected p-value
GO:0016286small conductance calcium-activated potassium channel activity0.0197801226784526
GO:0015269calcium-activated potassium channel activity0.0420142001768272
GO:0022839ion gated channel activity0.0420142001768272
GO:0005227calcium activated cation channel activity0.0420142001768272



Enriched sample ontology terms on this co-expression clusterSummary: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. Analyst: Hideya Kawaji

links to source dataset

cell_data
uberon_data
disease_data


Disease
Ontology termp-valuen
lymphoma7.50e-2410
hematologic cancer3.36e-0951
immune system cancer3.36e-0951
bone marrow cancer3.10e-081
myeloma3.10e-081
lymphatic system cancer3.55e-081
lymphosarcoma3.55e-081
genetic disease4.35e-081
monogenic disease4.35e-081
xeroderma pigmentosum4.35e-081
anemia7.45e-081
acute leukemia9.72e-081


Overrepresented TFBS (DNA) motifs on this co-expression clusterSummary: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. Analyst: Michiel de Hoon

link to source data
Novel motifs
data

Jaspar motifs
data


Novel motifs



JASPAR motifs

Motifs-log10(p-value)

{{{tfbs_overrepresentation_jaspar}}}



ENCODE TF ChIP-seq peak enrichment analysisSummary: 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.
Analyst: Erik Arner

link to source dataset

data


(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF#promotersEnrichmentp-valueq-value
BATF#10538416.23853452820243.98325915717398e-050.000742605503598881
EBF1#187945.937644564379340.001975153636421710.0114908127581466
MEF2A#4205412.4954872730960.0001113336277199790.00154642542165805
NFKB1#479054.57338618682820.00102196259371130.0072464356931641
POLR2A#543062.147453176558070.01019570676818780.0380404908246201
POU2F2#545257.588436714785448.70203885493171e-050.00129077153241047
TAF1#687252.785871904787740.01078636340290410.039796411044473



Relative expression of the co-expression clusterSummary:Co-expression clusters are compared against FANTOM5 samples to obtain relative expression.
Analyst:NA

link to data source
data


This analysis result is provided for C0 - C305 clusters.