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Coexpression cluster:C2632: Difference between revisions

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|full_id=C2632_Synoviocyte_mesenchymal_tenocyte_thyroid_Nucleus_Skeletal_Myoblast
|full_id=C2632_Synoviocyte_mesenchymal_tenocyte_thyroid_Nucleus_Skeletal_Myoblast
|id=C2632
|id=C2632
|ontology_enrichment_celltype=CL:0000188!9.37e-17!9;CL:0000515!1.15e-10!4;CL:0000153!2.19e-10!9;CL:0000447!2.19e-10!9;CL:0000499!1.08e-09!27;CL:0000135!4.70e-09!3;CL:0000386!4.70e-09!3;CL:0000388!4.70e-09!3;CL:0002564!1.02e-08!3;CL:0000035!2.44e-08!20;CL:0000048!7.41e-08!430;CL:0000594!9.59e-08!3;CL:0000062!1.13e-07!11;CL:0000375!1.13e-07!11;CL:0000335!1.13e-07!11;CL:0000723!1.51e-07!436;CL:0000055!1.99e-07!180;CL:0000667!2.75e-07!6;CL:0000058!2.75e-07!6;CL:0000138!2.75e-07!6;CL:0000034!3.75e-07!444
|ontology_enrichment_celltype=CL:0000515!3.74e-17!4;CL:0000153!4.51e-17!9;CL:0000447!4.51e-17!9;CL:0000499!1.16e-16!28;CL:0000188!1.97e-16!9;CL:0000135!3.75e-14!3;CL:0000386!3.75e-14!3;CL:0000388!3.75e-14!3;CL:0002564!1.16e-13!3;CL:0000667!1.18e-11!6;CL:0000058!1.18e-11!6;CL:0000138!1.18e-11!6;CL:0000327!5.59e-10!15;CL:0002602!8.25e-10!2;CL:0002540!1.72e-07!6;CL:0000214!4.33e-07!3;CL:0002582!9.20e-07!3
|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002204!1.38e-09!167;UBERON:0004905!3.40e-09!5;UBERON:0000982!3.40e-09!5;UBERON:0004770!3.40e-09!5;UBERON:0000043!4.70e-09!3;UBERON:0002242!1.02e-08!3;UBERON:0003068!1.02e-08!3;UBERON:0002328!1.02e-08!3;UBERON:0004880!1.02e-08!3
|ontology_enrichment_uberon=UBERON:0004905!2.53e-26!8;UBERON:0000982!2.53e-26!8;UBERON:0004770!2.53e-26!8;UBERON:0011135!9.97e-22!5;UBERON:0002216!9.97e-22!5;UBERON:0011134!9.97e-22!5;UBERON:0002209!9.97e-22!5;UBERON:0002213!9.97e-22!5;UBERON:0005856!9.97e-22!5;UBERON:0005866!9.97e-22!5;UBERON:0005863!9.97e-22!5;UBERON:0007844!9.97e-22!5;UBERON:0011138!9.97e-22!5;UBERON:0001130!9.97e-22!5;UBERON:0001066!9.97e-22!5;UBERON:0001468!9.97e-22!5;UBERON:0007846!3.75e-14!3;UBERON:0000043!3.75e-14!3;UBERON:0007845!3.75e-14!3;UBERON:0002242!1.16e-13!3;UBERON:0003068!1.16e-13!3;UBERON:0002328!1.16e-13!3;UBERON:0004880!1.16e-13!3;UBERON:0002204!4.42e-11!167;UBERON:0006444!8.25e-10!2;UBERON:0001995!8.25e-10!2;UBERON:0004715!8.25e-10!2;UBERON:0006915!4.33e-07!3;UBERON:0007616!4.33e-07!3;UBERON:0002217!4.33e-07!3;UBERON:0002018!4.33e-07!3;UBERON:0002418!8.45e-07!3;UBERON:0004755!8.45e-07!3
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}}
}}

Revision as of 14:15, 19 October 2012


Full id: C2632_Synoviocyte_mesenchymal_tenocyte_thyroid_Nucleus_Skeletal_Myoblast



Phase1 CAGE Peaks

Hg19::chr21:39704505..39704513,-p@chr21:39704505..39704513
-
Hg19::chr21:39705298..39705316,-p1@ENST00000414189
Hg19::chr21:39705323..39705334,-p2@ENST00000436845
Hg19::chr21:39705383..39705394,-p1@ENST00000436845


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
articulation2.53e-268
skeletal joint2.53e-268
articular system2.53e-268
intervertebral cartilage9.97e-225
symphysis9.97e-225
nonsynovial joint9.97e-225
fibrous joint9.97e-225
cartilaginous joint9.97e-225
developing mesenchymal condensation9.97e-225
pre-cartilage condensation9.97e-225
cartilaginous condensation9.97e-225
cartilage element9.97e-225
post-cranial axial skeletal system9.97e-225
vertebral column9.97e-225
intervertebral disk9.97e-225
intervertebral joint9.97e-225
dense regular connective tissue3.75e-143
tendon3.75e-143
regular connective tissue3.75e-143
nucleus pulposus1.16e-133
axial mesoderm1.16e-133
notochord1.16e-133
chordamesoderm1.16e-133
musculoskeletal system4.42e-11167
annulus fibrosus8.25e-102
fibrocartilage8.25e-102
annulus fibrosus disci intervertebralis8.25e-102
stratified squamous epithelium4.33e-073
layer of synovial tissue4.33e-073
synovial joint4.33e-073
synovial membrane of synovial joint4.33e-073
cartilage tissue8.45e-073
skeletal tissue8.45e-073


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.