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|gostat_on_coexpression_clusters=GO:0006512!ubiquitin cycle!0.00539557078421984!11274;55008;9636$GO:0009615!response to virus!0.00539557078421984!4938;9636$GO:0032020!ISG15-protein conjugation!0.0105553619861631!9636$GO:0051707!response to other organism!0.0105553619861631!4938;9636$GO:0043632!modification-dependent macromolecule catabolic process!0.0105553619861631!11274;9636$GO:0019941!modification-dependent protein catabolic process!0.0105553619861631!11274;9636$GO:0009607!response to biotic stimulus!0.0105553619861631!4938;9636$GO:0051603!proteolysis involved in cellular protein catabolic process!0.0105553619861631!11274;9636$GO:0044257!cellular protein catabolic process!0.0105553619861631!11274;9636$GO:0051704!multi-organism process!0.012320234401282!4938;9636$GO:0030163!protein catabolic process!0.0127801185248416!11274;9636$GO:0005737!cytoplasm!0.017462333649797!3434;55008;4938;9636;79132$GO:0043285!biopolymer catabolic process!0.017462333649797!11274;9636$GO:0044424!intracellular part!0.0193439322321757!3434;11274;55008;4938;9636;79132$GO:0044265!cellular macromolecule catabolic process!0.01998048690809!11274;9636$GO:0009057!macromolecule catabolic process!0.0253150277329111!11274;9636$GO:0043687!post-translational protein modification!0.0253150277329111!11274;55008;9636$GO:0005622!intracellular!0.0348662193231298!3434;11274;55008;4938;9636;79132$GO:0044248!cellular catabolic process!0.0368921277854879!11274;9636$GO:0006464!protein modification process!0.0368921277854879!11274;55008;9636$GO:0043412!biopolymer modification!0.0393377907931135!11274;55008;9636$GO:0009056!catabolic process!0.0439058078389735!11274;9636$GO:0003723!RNA binding!0.0439058078389735!4938;79132
|gostat_on_coexpression_clusters=GO:0006512!ubiquitin cycle!0.00539557078421984!11274;55008;9636$GO:0009615!response to virus!0.00539557078421984!4938;9636$GO:0032020!ISG15-protein conjugation!0.0105553619861631!9636$GO:0051707!response to other organism!0.0105553619861631!4938;9636$GO:0043632!modification-dependent macromolecule catabolic process!0.0105553619861631!11274;9636$GO:0019941!modification-dependent protein catabolic process!0.0105553619861631!11274;9636$GO:0009607!response to biotic stimulus!0.0105553619861631!4938;9636$GO:0051603!proteolysis involved in cellular protein catabolic process!0.0105553619861631!11274;9636$GO:0044257!cellular protein catabolic process!0.0105553619861631!11274;9636$GO:0051704!multi-organism process!0.012320234401282!4938;9636$GO:0030163!protein catabolic process!0.0127801185248416!11274;9636$GO:0005737!cytoplasm!0.017462333649797!3434;55008;4938;9636;79132$GO:0043285!biopolymer catabolic process!0.017462333649797!11274;9636$GO:0044424!intracellular part!0.0193439322321757!3434;11274;55008;4938;9636;79132$GO:0044265!cellular macromolecule catabolic process!0.01998048690809!11274;9636$GO:0009057!macromolecule catabolic process!0.0253150277329111!11274;9636$GO:0043687!post-translational protein modification!0.0253150277329111!11274;55008;9636$GO:0005622!intracellular!0.0348662193231298!3434;11274;55008;4938;9636;79132$GO:0044248!cellular catabolic process!0.0368921277854879!11274;9636$GO:0006464!protein modification process!0.0368921277854879!11274;55008;9636$GO:0043412!biopolymer modification!0.0393377907931135!11274;55008;9636$GO:0009056!catabolic process!0.0439058078389735!11274;9636$GO:0003723!RNA binding!0.0439058078389735!4938;79132
|id=C678
|id=C678
|ontology_enrichment_celltype=CL:0000766!3.16e-13!76;CL:0002087!3.86e-13!119;CL:0002057!4.71e-13!42;CL:0000860!2.81e-12!45;CL:0000738!3.34e-12!140;CL:0002194!4.77e-12!63;CL:0000576!4.77e-12!63;CL:0000040!4.77e-12!63;CL:0000559!4.77e-12!63;CL:0002031!1.49e-11!124;CL:0000839!3.45e-11!70;CL:0002009!7.09e-11!65;CL:0000557!2.52e-10!71
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002193!1.50e-14!112;UBERON:0002390!2.58e-14!102;UBERON:0003061!2.58e-14!102;UBERON:0007023!1.11e-10!115;UBERON:0002371!5.77e-09!80;UBERON:0001474!2.49e-08!86;UBERON:0002405!7.56e-08!115;UBERON:0004765!2.30e-07!101;UBERON:0001434!2.30e-07!101
}}
}}

Revision as of 14:56, 21 May 2012


Full id: C678_Smooth_CD14_embryonic_mesothelioma_gall_Fibroblast_meningioma



Phase1 CAGE Peaks

Hg19::chr10:91152368..91152419,+p1@IFIT1
Hg19::chr12:113344811..113344832,+p2@OAS1
Hg19::chr12:113405759..113405764,+p@chr12:113405759..113405764
+
Hg19::chr17:40263911..40263923,-p6@DHX58
Hg19::chr1:948866..948885,+p1@ISG15
Hg19::chr22:18632907..18632918,+p3@USP18
Hg19::chr22:18632929..18632945,+p1@USP18
Hg19::chr2:7005572..7005619,-p2@CMPK2
Hg19::chr4:89299964..89299986,+p3@HERC6
Hg19::chr4:89299994..89300011,+p2@HERC6
Hg19::chr4:89300057..89300068,+p7@HERC6
Hg19::chr4:89300072..89300089,+p4@HERC6


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:0006512ubiquitin cycle0.00539557078421984
GO:0009615response to virus0.00539557078421984
GO:0032020ISG15-protein conjugation0.0105553619861631
GO:0051707response to other organism0.0105553619861631
GO:0043632modification-dependent macromolecule catabolic process0.0105553619861631
GO:0019941modification-dependent protein catabolic process0.0105553619861631
GO:0009607response to biotic stimulus0.0105553619861631
GO:0051603proteolysis involved in cellular protein catabolic process0.0105553619861631
GO:0044257cellular protein catabolic process0.0105553619861631
GO:0051704multi-organism process0.012320234401282
GO:0030163protein catabolic process0.0127801185248416
GO:0005737cytoplasm0.017462333649797
GO:0043285biopolymer catabolic process0.017462333649797
GO:0044424intracellular part0.0193439322321757
GO:0044265cellular macromolecule catabolic process0.01998048690809
GO:0009057macromolecule catabolic process0.0253150277329111
GO:0043687post-translational protein modification0.0253150277329111
GO:0005622intracellular0.0348662193231298
GO:0044248cellular catabolic process0.0368921277854879
GO:0006464protein modification process0.0368921277854879
GO:0043412biopolymer modification0.0393377907931135
GO:0009056catabolic process0.0439058078389735
GO:0003723RNA binding0.0439058078389735



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>


Uber Anatomy
Ontology termp-valuen
hemolymphoid system1.50e-14112
hematopoietic system2.58e-14102
blood island2.58e-14102
adult organism1.11e-10115
bone marrow5.77e-0980
bone element2.49e-0886
immune system7.56e-08115
skeletal element2.30e-07101
skeletal system2.30e-07101


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.