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|full_id=C4315_parietal_occipital_heart_temporal_medial_left_olfactory
|full_id=C4315_parietal_occipital_heart_temporal_medial_left_olfactory
|id=C4315
|id=C4315
|ontology_enrichment_celltype=CL:0000039!7.36e-07!7;CL:0000586!7.36e-07!7
|ontology_enrichment_disease=DOID:0050687!1.65e-11!143;DOID:305!2.51e-11!106;DOID:3095!2.55e-07!22;DOID:2994!2.55e-07!22
|ontology_enrichment_uberon=UBERON:0001017!1.43e-41!82;UBERON:0001049!2.14e-41!57;UBERON:0005068!2.14e-41!57;UBERON:0006241!2.14e-41!57;UBERON:0007135!2.14e-41!57;UBERON:0005743!4.14e-40!86;UBERON:0000073!2.11e-36!94;UBERON:0001016!2.11e-36!94;UBERON:0000955!6.21e-36!69;UBERON:0006238!6.21e-36!69;UBERON:0002780!8.38e-36!41;UBERON:0001890!8.38e-36!41;UBERON:0006240!8.38e-36!41;UBERON:0002616!1.73e-35!59;UBERON:0002346!2.16e-35!90;UBERON:0003080!1.32e-34!42;UBERON:0003075!4.99e-34!86;UBERON:0007284!4.99e-34!86;UBERON:0001893!5.81e-32!34;UBERON:0002020!6.47e-32!34;UBERON:0003528!6.47e-32!34;UBERON:0002791!8.22e-31!33;UBERON:0001869!3.92e-30!32;UBERON:0007023!7.87e-29!115;UBERON:0003056!1.46e-25!61;UBERON:0002619!3.24e-25!22;UBERON:0000956!4.59e-23!25;UBERON:0000203!4.59e-23!25;UBERON:0001950!4.86e-23!20;UBERON:0000924!5.52e-22!173;UBERON:0006601!5.52e-22!173;UBERON:0004121!9.24e-21!169;UBERON:0000033!1.01e-17!123;UBERON:0000153!5.14e-16!129;UBERON:0007811!5.14e-16!129;UBERON:0000025!1.92e-14!194;UBERON:0004111!1.48e-10!241;UBERON:0002420!1.56e-10!9;UBERON:0007245!1.56e-10!9;UBERON:0010009!1.56e-10!9;UBERON:0010011!1.56e-10!9;UBERON:0000454!1.56e-10!9;UBERON:0002308!2.89e-10!9;UBERON:0000125!2.89e-10!9;UBERON:0000483!6.58e-10!309;UBERON:0000119!1.44e-09!312;UBERON:0000064!4.89e-09!219;UBERON:0000062!6.82e-09!511;UBERON:0000200!1.62e-08!6;UBERON:0009663!2.57e-08!7;UBERON:0003076!3.39e-08!15;UBERON:0003057!3.39e-08!15;UBERON:0000477!3.80e-08!286;UBERON:0001871!4.25e-08!7;UBERON:0002021!1.84e-07!5;UBERON:0001872!2.08e-07!5;UBERON:0004733!3.15e-07!12;UBERON:0002028!3.15e-07!12;UBERON:0007277!3.15e-07!12;UBERON:0000349!5.10e-07!5
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Revision as of 14:47, 21 May 2012


Full id: C4315_parietal_occipital_heart_temporal_medial_left_olfactory



Phase1 CAGE Peaks

Hg19::chr3:192339475..192339480,-p@chr3:192339475..192339480
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Hg19::chr3:192363553..192363555,-p@chr3:192363553..192363555
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Hg19::chr3:192387387..192387392,-p@chr3:192387387..192387392
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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>disease_data<br>


Cell Type
Ontology termp-valuen
germ line cell7.36e-077
germ cell7.36e-077
Uber Anatomy
Ontology termp-valuen
central nervous system1.43e-4182
neural tube2.14e-4157
neural rod2.14e-4157
future spinal cord2.14e-4157
neural keel2.14e-4157
regional part of nervous system2.11e-3694
nervous system2.11e-3694
brain6.21e-3669
future brain6.21e-3669
regional part of forebrain8.38e-3641
forebrain8.38e-3641
future forebrain8.38e-3641
regional part of brain1.73e-3559
neurectoderm2.16e-3590
anterior neural tube1.32e-3442
neural plate4.99e-3486
presumptive neural plate4.99e-3486
telencephalon5.81e-3234
gray matter6.47e-3234
brain grey matter6.47e-3234
regional part of telencephalon8.22e-3133
cerebral hemisphere3.92e-3032
adult organism7.87e-29115
pre-chordal neural plate1.46e-2561
regional part of cerebral cortex3.24e-2522
cerebral cortex4.59e-2325
pallium4.59e-2325
neocortex4.86e-2320
ectoderm5.52e-22173
presumptive ectoderm5.52e-22173
ectoderm-derived structure9.24e-21169
head1.01e-17123
anterior region of body5.14e-16129
craniocervical region5.14e-16129
tube1.92e-14194
anatomical conduit1.48e-10241
basal ganglion1.56e-109
nuclear complex of neuraxis1.56e-109
aggregate regional part of brain1.56e-109
collection of basal ganglia1.56e-109
cerebral subcortex1.56e-109
nucleus of brain2.89e-109
neural nucleus2.89e-109
epithelium6.58e-10309
cell layer1.44e-09312
organ part4.89e-09219
organ6.82e-09511
gyrus1.62e-086
telencephalic nucleus2.57e-087
posterior neural tube3.39e-0815
chordal neural plate3.39e-0815
anatomical cluster3.80e-08286
temporal lobe4.25e-087
occipital lobe1.84e-075
parietal lobe2.08e-075
segmental subdivision of hindbrain3.15e-0712
hindbrain3.15e-0712
presumptive hindbrain3.15e-0712
limbic system5.10e-075
Disease
Ontology termp-valuen
cell type cancer1.65e-11143
carcinoma2.51e-11106
germ cell and embryonal cancer2.55e-0722
germ cell cancer2.55e-0722


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.