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|full_id=C4023_Mesenchymal_heart_skeletal_left_tongue_temporal_brain
|full_id=C4023_Mesenchymal_heart_skeletal_left_tongue_temporal_brain
|id=C4023
|id=C4023
|ontology_enrichment_celltype=CL:0000055!1.24e-11!180;CL:0000136!7.50e-09!15
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000475!1.24e-28!365;UBERON:0007023!2.67e-27!115;UBERON:0005743!2.43e-22!86;UBERON:0001049!4.56e-22!57;UBERON:0005068!4.56e-22!57;UBERON:0006241!4.56e-22!57;UBERON:0007135!4.56e-22!57;UBERON:0003075!5.35e-22!86;UBERON:0007284!5.35e-22!86;UBERON:0000955!1.57e-21!69;UBERON:0006238!1.57e-21!69;UBERON:0001017!6.38e-21!82;UBERON:0002616!1.09e-20!59;UBERON:0000073!7.68e-20!94;UBERON:0001016!7.68e-20!94;UBERON:0002346!1.07e-19!90;UBERON:0000481!5.33e-19!347;UBERON:0000483!5.99e-19!309;UBERON:0000033!7.47e-19!123;UBERON:0000119!1.46e-18!312;UBERON:0000153!2.36e-18!129;UBERON:0007811!2.36e-18!129;UBERON:0004121!1.62e-16!169;UBERON:0003080!9.73e-16!42;UBERON:0001893!1.67e-15!34;UBERON:0002020!2.01e-15!34;UBERON:0003528!2.01e-15!34;UBERON:0002780!2.10e-15!41;UBERON:0001890!2.10e-15!41;UBERON:0006240!2.10e-15!41;UBERON:0000924!2.91e-15!173;UBERON:0006601!2.91e-15!173;UBERON:0004111!3.20e-15!241;UBERON:0000025!5.06e-15!194;UBERON:0002791!6.37e-15!33;UBERON:0001869!1.76e-14!32;UBERON:0000477!5.64e-14!286;UBERON:0003056!8.48e-14!61;UBERON:0002619!6.61e-11!22;UBERON:0000956!1.39e-10!25;UBERON:0000203!1.39e-10!25;UBERON:0000064!1.75e-10!219;UBERON:0001950!7.80e-10!20;UBERON:0003103!9.07e-09!69;UBERON:0000062!6.21e-08!511;UBERON:0000468!8.68e-08!659;UBERON:0003076!1.33e-07!15;UBERON:0003057!1.33e-07!15;UBERON:0002100!2.67e-07!216;UBERON:0005256!4.23e-07!143;UBERON:0007100!8.20e-07!27;UBERON:0000467!8.29e-07!625
}}
}}

Revision as of 14:43, 21 May 2012


Full id: C4023_Mesenchymal_heart_skeletal_left_tongue_temporal_brain



Phase1 CAGE Peaks

Hg19::chr20:32031426..32031441,-p3@SNTA1
Hg19::chr20:32031457..32031576,-p1@SNTA1
Hg19::chr20:32031680..32031703,-p2@SNTA1


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>


Cell Type
Ontology termp-valuen
non-terminally differentiated cell1.24e-11180
fat cell7.50e-0915
Uber Anatomy
Ontology termp-valuen
organism subdivision1.24e-28365
adult organism2.67e-27115
neural tube4.56e-2257
neural rod4.56e-2257
future spinal cord4.56e-2257
neural keel4.56e-2257
neural plate5.35e-2286
presumptive neural plate5.35e-2286
brain1.57e-2169
future brain1.57e-2169
central nervous system6.38e-2182
regional part of brain1.09e-2059
regional part of nervous system7.68e-2094
nervous system7.68e-2094
neurectoderm1.07e-1990
multi-tissue structure5.33e-19347
epithelium5.99e-19309
head7.47e-19123
cell layer1.46e-18312
anterior region of body2.36e-18129
craniocervical region2.36e-18129
ectoderm-derived structure1.62e-16169
anterior neural tube9.73e-1642
telencephalon1.67e-1534
gray matter2.01e-1534
brain grey matter2.01e-1534
regional part of forebrain2.10e-1541
forebrain2.10e-1541
future forebrain2.10e-1541
ectoderm2.91e-15173
presumptive ectoderm2.91e-15173
anatomical conduit3.20e-15241
tube5.06e-15194
regional part of telencephalon6.37e-1533
cerebral hemisphere1.76e-1432
anatomical cluster5.64e-14286
pre-chordal neural plate8.48e-1461
regional part of cerebral cortex6.61e-1122
cerebral cortex1.39e-1025
pallium1.39e-1025
organ part1.75e-10219
neocortex7.80e-1020
compound organ9.07e-0969
organ6.21e-08511
multi-cellular organism8.68e-08659
posterior neural tube1.33e-0715
chordal neural plate1.33e-0715
trunk2.67e-07216
trunk mesenchyme4.23e-07143
primary circulatory organ8.20e-0727
anatomical system8.29e-07625


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.