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Coexpression cluster:C653

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Full id: C653_cerebellum_pituitary_pineal_nonsmall_somatostatinoma_occipital_small



Phase1 CAGE Peaks

Hg19::chr11:17498348..17498431,-p1@ABCC8
Hg19::chr17:2652834..2652899,-p@chr17:2652834..2652899
-
Hg19::chr17:2652910..2652993,-p@chr17:2652910..2652993
-
Hg19::chr1:39734131..39734171,+p3@MACF1
Hg19::chr20:10199329..10199356,-p@chr20:10199329..10199356
-
Hg19::chr20:5892121..5892131,+p3@CHGB
Hg19::chr5:140201183..140201218,+p1@PCDHA5
Hg19::chr7:153790099..153790127,+p@chr7:153790099..153790127
+
Hg19::chr7:82792120..82792150,-p3@PCLO
Hg19::chr8:104512123..104512154,+p@chr8:104512123..104512154
+
Hg19::chr8:104512157..104512199,+p@chr8:104512157..104512199
+
Hg19::chr8:104512807..104512822,+p12@RIMS2
Hg19::chr8:104512831..104512852,+p5@RIMS2


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:0015079potassium ion transmembrane transporter activity0.0412124876932546
GO:0005522profilin binding0.0412124876932546
GO:0016079synaptic vesicle exocytosis0.0412124876932546
GO:0008281sulfonylurea receptor activity0.0412124876932546
GO:0005509calcium ion binding0.0412124876932546



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><br>uberon_data<br><br>


Uber Anatomy
Ontology termp-valuen
regional part of nervous system1.09e-3694
nervous system1.09e-3694
central nervous system2.93e-3582
neural tube1.31e-3057
neural rod1.31e-3057
future spinal cord1.31e-3057
neural keel1.31e-3057
ectoderm-derived structure6.94e-30169
ectoderm1.51e-29173
presumptive ectoderm1.51e-29173
adult organism3.65e-29115
brain6.58e-2969
future brain6.58e-2969
regional part of brain6.05e-2859
neural plate2.13e-2686
presumptive neural plate2.13e-2686
neurectoderm1.29e-2590
head3.19e-25123
anterior neural tube5.59e-2542
regional part of forebrain7.66e-2541
forebrain7.66e-2541
future forebrain7.66e-2541
anterior region of body9.53e-25129
craniocervical region9.53e-25129
pre-chordal neural plate4.79e-2161
gray matter1.92e-2034
brain grey matter1.92e-2034
telencephalon2.02e-2034
regional part of telencephalon8.78e-2033
cerebral hemisphere1.82e-1932
organism subdivision2.42e-16365
regional part of cerebral cortex2.05e-1522
cerebral cortex2.50e-1525
pallium2.50e-1525
neocortex2.99e-1420
multi-tissue structure5.38e-11347
organ8.28e-09511
multi-cellular organism1.84e-08659
anatomical conduit5.33e-07241
posterior neural tube6.11e-0715
chordal neural plate6.11e-0715
epithelium7.31e-07309
anatomical group8.56e-07626
cell layer9.25e-07312


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.