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|gostat_on_coexpression_clusters=GO:0032393!MHC class I receptor activity!0.0216649005062993!3107$GO:0002474!antigen processing and presentation of peptide antigen via MHC class I!0.0236959849287649!3107$GO:0048002!antigen processing and presentation of peptide antigen!0.0236959849287649!3107$GO:0042612!MHC class I protein complex!0.039098375132462!3107$GO:0042611!MHC protein complex!0.0468277797401782!3107$GO:0019882!antigen processing and presentation!0.0468277797401782!3107
 
|gostat_on_coexpression_clusters=GO:0032393!MHC class I receptor activity!0.0216649005062993!3107$GO:0002474!antigen processing and presentation of peptide antigen via MHC class I!0.0236959849287649!3107$GO:0048002!antigen processing and presentation of peptide antigen!0.0236959849287649!3107$GO:0042612!MHC class I protein complex!0.039098375132462!3107$GO:0042611!MHC protein complex!0.0468277797401782!3107$GO:0019882!antigen processing and presentation!0.0468277797401782!3107
 
|id=C1508
 
|id=C1508
 +
|ontology_enrichment_celltype=CL:0000236!1.75e-22!14;CL:0000945!1.89e-22!24;CL:0000826!1.89e-22!24;CL:0000838!9.32e-15!52;CL:0000542!2.44e-14!53;CL:0000051!2.44e-14!53;CL:0000784!3.35e-07!3;CL:0000738!3.59e-07!140;CL:0000080!9.55e-07!6
 +
|ontology_enrichment_disease=DOID:0060058!1.51e-08!10
 +
|ontology_enrichment_uberon=UBERON:0007023!1.45e-18!115;UBERON:0000178!1.73e-17!15;UBERON:0000179!1.73e-17!15;UBERON:0000463!1.73e-17!15
 
}}
 
}}

Revision as of 05:12, 21 May 2012


Full id: C1508_Dendritic_adult_lymphangiectasia_hairy_CD19_lymphoma_diffuse



Phase1 CAGE Peaks

Hg19::chr2:89157617..89157666,-p@chr2:89157617..89157666
-
Hg19::chr2:89157733..89157742,-p3@X96754
Hg19::chr2:89160425..89160447,-p1@IGKJ4
Hg19::chr2:89161990..89162001,-p@chr2:89161990..89162001
-
Hg19::chr2:89162016..89162024,-p@chr2:89162016..89162024
-
Hg19::chr2:89165738..89165741,-p7@ENST00000430694
p7@uc002stj.1


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:0032393MHC class I receptor activity0.0216649005062993
GO:0002474antigen processing and presentation of peptide antigen via MHC class I0.0236959849287649
GO:0048002antigen processing and presentation of peptide antigen0.0236959849287649
GO:0042612MHC class I protein complex0.039098375132462
GO:0042611MHC protein complex0.0468277797401782
GO:0019882antigen processing and presentation0.0468277797401782



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>disease_data<br>


Cell Type
Ontology termp-valuen
B cell1.75e-2214
lymphocyte of B lineage1.89e-2224
pro-B cell1.89e-2224
lymphoid lineage restricted progenitor cell9.32e-1552
lymphocyte2.44e-1453
common lymphoid progenitor2.44e-1453
plasmacytoid dendritic cell3.35e-073
leukocyte3.59e-07140
circulating cell9.55e-076
Uber Anatomy
Ontology termp-valuen
adult organism1.45e-18115
blood1.73e-1715
haemolymphatic fluid1.73e-1715
organism substance1.73e-1715
Disease
Ontology termp-valuen
lymphoma1.51e-0810


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.