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Coexpression cluster:C1358

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Full id: C1358_Endothelial_gall_thyroid_throat_colon_Lymphatic_chorionic



Phase1 CAGE Peaks

Hg19::chr12:27732320..27732331,+p@chr12:27732320..27732331
+
Hg19::chr13:102379103..102379108,-p@chr13:102379103..102379108
-
Hg19::chr17:54893310..54893315,-p15@C17orf67
Hg19::chr21:43735628..43735639,-p2@TFF3
Hg19::chr5:88119580..88119602,-p17@MEF2C
Hg19::chr6:112418355..112418366,+p@chr6:112418355..112418366
+


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:0001958endochondral ossification0.0146574049732053
GO:0001974blood vessel remodeling0.0146574049732053
GO:0002062chondrocyte differentiation0.0146574049732053
GO:0001649osteoblast differentiation0.0301166920655731
GO:0051216cartilage development0.0301166920655731
GO:0030141secretory granule0.0301166920655731
GO:0031214biomineral formation0.0425851167937675
GO:0001503ossification0.0425851167937675
GO:0007507heart development0.0425851167937675
GO:0007586digestion0.0425851167937675
GO:0046849bone remodeling0.0425851167937675
GO:0048771tissue remodeling0.0426903518488907
GO:0045944positive regulation of transcription from RNA polymerase II promoter0.0493142082827577
GO:0048514blood vessel morphogenesis0.0493142082827577
GO:0001568blood vessel development0.0493142082827577
GO:0001944vasculature development0.0493142082827577
GO:0007517muscle development0.0493142082827577



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>


Cell Type
Ontology termp-valuen
lymphangioblast5.53e-076
endothelial cell of lymphatic vessel5.53e-076
vascular lymphangioblast5.53e-076
Uber Anatomy
Ontology termp-valuen
adult organism1.53e-34115
neocortex5.60e-0920
regional part of cerebral cortex9.49e-0922
cerebral hemisphere1.39e-0832
anterior neural tube1.84e-0842
telencephalon1.86e-0834
regional part of telencephalon4.92e-0833
regional part of forebrain4.95e-0841
forebrain4.95e-0841
future forebrain4.95e-0841
neural tube9.38e-0857
neural rod9.38e-0857
future spinal cord9.38e-0857
neural keel9.38e-0857
regional part of brain1.27e-0759
anatomical cluster1.39e-07286
gray matter1.64e-0734
brain grey matter1.64e-0734
anatomical conduit2.31e-07241
cerebral cortex4.38e-0725
pallium4.38e-0725


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.