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|ontology_enrichment_disease=
|ontology_enrichment_disease=
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|ontology_enrichment_uberon=UBERON:0007023!5.08e-48!115;UBERON:0001049!4.77e-17!57;UBERON:0005068!4.77e-17!57;UBERON:0006241!4.77e-17!57;UBERON:0007135!4.77e-17!57;UBERON:0003080!3.12e-14!42;UBERON:0002780!1.49e-13!41;UBERON:0001890!1.49e-13!41;UBERON:0006240!1.49e-13!41;UBERON:0002616!2.80e-13!59;UBERON:0001017!3.04e-12!82;UBERON:0005743!9.44e-12!86;UBERON:0002346!2.03e-11!90;UBERON:0000955!3.20e-11!69;UBERON:0006238!3.20e-11!69;UBERON:0003075!4.66e-11!86;UBERON:0007284!4.66e-11!86;UBERON:0000062!6.75e-11!511;UBERON:0002020!1.34e-10!34;UBERON:0003528!1.34e-10!34;UBERON:0001893!2.22e-10!34;UBERON:0002791!4.98e-10!33;UBERON:0000073!1.04e-09!94;UBERON:0001016!1.04e-09!94;UBERON:0000468!1.50e-09!659;UBERON:0001869!1.68e-09!32;UBERON:0000467!7.28e-08!625;UBERON:0000480!9.24e-08!626;UBERON:0003056!1.36e-07!61;UBERON:0001950!3.68e-07!20;UBERON:0002619!4.10e-07!22;UBERON:0000956!5.00e-07!25;UBERON:0000203!5.00e-07!25;UBERON:0000477!5.47e-07!286;UBERON:0004111!5.90e-07!241
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}}
}}

Revision as of 16:58, 8 August 2012


Full id: C1182_Hepatocyte_lung_liver_Monocytederived_hepatocellular_heart_penis



Phase1 CAGE Peaks

Hg19::chr12:9229977..9230013,-p@chr12:9229977..9230013
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Hg19::chr12:9241817..9241849,-p@chr12:9241817..9241849
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Hg19::chr12:9242546..9242568,-p@chr12:9242546..9242568
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Hg19::chr12:9242582..9242602,-p@chr12:9242582..9242602
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Hg19::chr12:9242983..9242995,-p9@A2M
Hg19::chr12:9262000..9262009,-p@chr12:9262000..9262009
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Hg19::chr12:9265098..9265122,-p@chr12:9265098..9265122
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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><br>uberon_data<br><br>


Uber Anatomy
Ontology termp-valuen
adult organism5.08e-48115
neural tube4.77e-1757
neural rod4.77e-1757
future spinal cord4.77e-1757
neural keel4.77e-1757
anterior neural tube3.12e-1442
regional part of forebrain1.49e-1341
forebrain1.49e-1341
future forebrain1.49e-1341
regional part of brain2.80e-1359
central nervous system3.04e-1282
neurectoderm2.03e-1190
brain3.20e-1169
future brain3.20e-1169
neural plate4.66e-1186
presumptive neural plate4.66e-1186
organ6.75e-11511
gray matter1.34e-1034
brain grey matter1.34e-1034
telencephalon2.22e-1034
regional part of telencephalon4.98e-1033
regional part of nervous system1.04e-0994
nervous system1.04e-0994
multi-cellular organism1.50e-09659
cerebral hemisphere1.68e-0932
anatomical system7.28e-08625
anatomical group9.24e-08626
pre-chordal neural plate1.36e-0761
neocortex3.68e-0720
regional part of cerebral cortex4.10e-0722
cerebral cortex5.00e-0725
pallium5.00e-0725
anatomical cluster5.47e-07286
anatomical conduit5.90e-07241


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)

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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.