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|full_id=C3266_uterus_aorta_smooth_colon_Olfactory_Fibroblast_dura
|full_id=C3266_uterus_aorta_smooth_colon_Olfactory_Fibroblast_dura
|id=C3266
|id=C3266
|ontology_enrichment_celltype=CL:0000055!1.91e-18!180;CL:0000057!1.27e-14!75;CL:0002620!6.34e-09!23
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0007023!1.22e-30!115;UBERON:0001049!3.86e-25!57;UBERON:0005068!3.86e-25!57;UBERON:0006241!3.86e-25!57;UBERON:0007135!3.86e-25!57;UBERON:0001017!4.01e-25!82;UBERON:0000073!1.98e-24!94;UBERON:0001016!1.98e-24!94;UBERON:0005743!2.38e-24!86;UBERON:0002616!2.48e-23!59;UBERON:0000955!2.55e-23!69;UBERON:0006238!2.55e-23!69;UBERON:0000924!1.42e-20!173;UBERON:0006601!1.42e-20!173;UBERON:0000475!2.93e-20!365;UBERON:0004121!4.30e-20!169;UBERON:0002346!4.70e-20!90;UBERON:0003075!1.00e-19!86;UBERON:0007284!1.00e-19!86;UBERON:0003080!3.71e-19!42;UBERON:0002780!4.22e-19!41;UBERON:0001890!4.22e-19!41;UBERON:0006240!4.22e-19!41;UBERON:0002020!1.61e-17!34;UBERON:0003528!1.61e-17!34;UBERON:0000033!1.65e-17!123;UBERON:0001893!2.18e-17!34;UBERON:0001869!4.22e-17!32;UBERON:0002791!7.95e-17!33;UBERON:0000153!8.93e-17!129;UBERON:0007811!8.93e-17!129;UBERON:0002619!2.64e-15!22;UBERON:0001950!4.12e-14!20;UBERON:0000956!5.89e-14!25;UBERON:0000203!5.89e-14!25;UBERON:0003056!8.52e-13!61;UBERON:0000468!2.73e-11!659;UBERON:0000481!3.25e-11!347;UBERON:0000914!5.29e-09!83;UBERON:0002329!5.29e-09!83;UBERON:0003077!5.29e-09!83;UBERON:0003059!5.29e-09!83;UBERON:0007282!5.29e-09!83;UBERON:0009618!5.29e-09!83;UBERON:0007285!5.29e-09!83;UBERON:0000467!4.47e-08!625;UBERON:0003102!5.27e-08!95;UBERON:0000480!6.65e-08!626;UBERON:0002199!1.04e-07!45;UBERON:0002416!1.04e-07!45;UBERON:0000119!1.31e-07!312;UBERON:0000483!1.33e-07!309;UBERON:0004290!1.45e-07!70;UBERON:0000062!1.55e-07!511;UBERON:0000477!2.40e-07!286;UBERON:0003076!3.54e-07!15;UBERON:0003057!3.54e-07!15;UBERON:0004111!4.34e-07!241;UBERON:0000025!4.34e-07!194;UBERON:0002097!8.65e-07!40
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Revision as of 14:34, 21 May 2012


Full id: C3266_uterus_aorta_smooth_colon_Olfactory_Fibroblast_dura



Phase1 CAGE Peaks

Hg19::chr12:2162144..2162196,+p1@CACNA1C
Hg19::chr12:2162419..2162431,+p5@CACNA1C
Hg19::chr12:2162447..2162462,+p3@CACNA1C


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 cell1.91e-18180
fibroblast1.27e-1475
skin fibroblast6.34e-0923
Uber Anatomy
Ontology termp-valuen
adult organism1.22e-30115
neural tube3.86e-2557
neural rod3.86e-2557
future spinal cord3.86e-2557
neural keel3.86e-2557
central nervous system4.01e-2582
regional part of nervous system1.98e-2494
nervous system1.98e-2494
regional part of brain2.48e-2359
brain2.55e-2369
future brain2.55e-2369
ectoderm1.42e-20173
presumptive ectoderm1.42e-20173
organism subdivision2.93e-20365
ectoderm-derived structure4.30e-20169
neurectoderm4.70e-2090
neural plate1.00e-1986
presumptive neural plate1.00e-1986
anterior neural tube3.71e-1942
regional part of forebrain4.22e-1941
forebrain4.22e-1941
future forebrain4.22e-1941
gray matter1.61e-1734
brain grey matter1.61e-1734
head1.65e-17123
telencephalon2.18e-1734
cerebral hemisphere4.22e-1732
regional part of telencephalon7.95e-1733
anterior region of body8.93e-17129
craniocervical region8.93e-17129
regional part of cerebral cortex2.64e-1522
neocortex4.12e-1420
cerebral cortex5.89e-1425
pallium5.89e-1425
pre-chordal neural plate8.52e-1361
multi-cellular organism2.73e-11659
multi-tissue structure3.25e-11347
somite5.29e-0983
paraxial mesoderm5.29e-0983
presomitic mesoderm5.29e-0983
presumptive segmental plate5.29e-0983
trunk paraxial mesoderm5.29e-0983
presumptive paraxial mesoderm5.29e-0983
anatomical system4.47e-08625
surface structure5.27e-0895
anatomical group6.65e-08626
integument1.04e-0745
integumental system1.04e-0745
cell layer1.31e-07312
epithelium1.33e-07309
dermomyotome1.45e-0770
organ1.55e-07511
anatomical cluster2.40e-07286
posterior neural tube3.54e-0715
chordal neural plate3.54e-0715
anatomical conduit4.34e-07241
tube4.34e-07194
skin of body8.65e-0740


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.