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Coexpression cluster:C1395

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Full id: C1395_temporal_occipital_duodenum_parietal_medial_cerebellum_brain



Phase1 CAGE Peaks

Hg19::chr14:60074147..60074162,-p12@RTN1
Hg19::chr16:56390504..56390515,+p@chr16:56390504..56390515
+
Hg19::chr17:30814707..30814718,+p17@CDK5R1
Hg19::chr19:42471082..42471122,-p@chr19:42471082..42471122
-
Hg19::chr6:109761966..109761979,-p4@PPIL6
Hg19::chrX:99665097..99665125,-p2@PCDH19


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:0030182neuron differentiation0.00720561611857918
GO:0016533cyclin-dependent protein kinase 5 activator complex0.00720561611857918
GO:0043539protein serine/threonine kinase activator activity0.00720561611857918
GO:0035235ionotropic glutamate receptor signaling pathway0.00720561611857918
GO:0016534cyclin-dependent protein kinase 5 activator activity0.00720561611857918
GO:0048699generation of neurons0.00765940106601726
GO:0022008neurogenesis0.00769157031996023
GO:0007413axonal fasciculation0.00969772650622996
GO:0016337cell-cell adhesion0.00969772650622996
GO:0031594neuromuscular junction0.00969772650622996
GO:0043197dendritic spine0.00969772650622996
GO:0007213acetylcholine receptor signaling, muscarinic pathway0.00969772650622996
GO:0007158neuron adhesion0.00969772650622996
GO:0043525positive regulation of neuron apoptosis0.011576875510383
GO:0008038neuron recognition0.01320504727344
GO:0030295protein kinase activator activity0.013504565630361
GO:0045296cadherin binding0.0137687530116964
GO:0050839cell adhesion molecule binding0.0140034979185793
GO:0030426growth cone0.0162011855987303
GO:0019209kinase activator activity0.0162011855987303
GO:0030427site of polarized growth0.0162861869441539
GO:0007215glutamate signaling pathway0.0171807993626783
GO:0007399nervous system development0.0172130658216937
GO:0043523regulation of neuron apoptosis0.0187147571999021
GO:0045664regulation of neuron differentiation0.0187147571999021
GO:0051402neuron apoptosis0.0207597465600854
GO:0030424axon0.0213659970292782
GO:0043025cell soma0.0213659970292782
GO:0001764neuron migration0.0213659970292782
GO:0008037cell recognition0.0213659970292782
GO:0030425dendrite0.0213659970292782
GO:0022610biological adhesion0.0213659970292782
GO:0007155cell adhesion0.0213659970292782
GO:0044463cell projection part0.0248523245329768
GO:0000079regulation of cyclin-dependent protein kinase activity0.0251673650516551
GO:0030176integral to endoplasmic reticulum membrane0.0264610062785568
GO:0007411axon guidance0.0271995516014897
GO:0031227intrinsic to endoplasmic reticulum membrane0.028842026336961
GO:0043292contractile fiber0.0291797408887818
GO:0048468cell development0.0291797408887818
GO:0043005neuron projection0.0354647600560195
GO:0005509calcium ion binding0.0379224089843669
GO:0003755peptidyl-prolyl cis-trans isomerase activity0.0379224089843669
GO:0016859cis-trans isomerase activity0.0379224089843669
GO:0019887protein kinase regulator activity0.041766460181213
GO:0048731system development0.041766460181213
GO:0007409axonogenesis0.0434780166963583
GO:0048667neuron morphogenesis during differentiation0.0437219029656972
GO:0048812neurite morphogenesis0.0437219029656972
GO:0019207kinase regulator activity0.0437219029656972
GO:0000904cellular morphogenesis during differentiation0.0442621846464368
GO:0031175neurite development0.0444436574628336
GO:0048869cellular developmental process0.0444436574628336
GO:0030154cell differentiation0.0444436574628336
GO:0007420brain development0.0444436574628336
GO:0031301integral to organelle membrane0.0444436574628336
GO:0045595regulation of cell differentiation0.0452245969787288
GO:0031300intrinsic to organelle membrane0.0467050532889091
GO:0048666neuron development0.0467050532889091
GO:0048856anatomical structure development0.0491735817345141



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

Uber Anatomy
Ontology termp-valuen

Disease
Ontology termp-valuen


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.