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Coexpression cluster:C4264: Difference between revisions

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|gostat_on_coexpression_clusters=GO:0004629!phospholipase C activity!0.0377386675552978!257068$GO:0004620!phospholipase activity!0.0377386675552978!257068$GO:0008081!phosphoric diester hydrolase activity!0.0377386675552978!257068$GO:0016298!lipase activity!0.0377386675552978!257068$GO:0016042!lipid catabolic process!0.0377386675552978!257068$GO:0004091!carboxylesterase activity!0.0402560676798472!257068
|gostat_on_coexpression_clusters=GO:0004629!phospholipase C activity!0.0377386675552978!257068$GO:0004620!phospholipase activity!0.0377386675552978!257068$GO:0008081!phosphoric diester hydrolase activity!0.0377386675552978!257068$GO:0016298!lipase activity!0.0377386675552978!257068$GO:0016042!lipid catabolic process!0.0377386675552978!257068$GO:0004091!carboxylesterase activity!0.0402560676798472!257068
|id=C4264
|id=C4264
|ontology_enrichment_celltype=CL:0000066!9.14e-27!254;CL:0000223!5.51e-24!59;CL:0002076!3.37e-20!43;CL:0002368!2.10e-13!13;CL:0002202!2.49e-09!9;CL:0002632!2.49e-09!9;CL:0002251!1.79e-07!21
|ontology_enrichment_celltype=CL:0000223!3.14e-29!58;CL:0000066!2.72e-26!253;CL:0002076!1.78e-23!42;CL:0002368!1.11e-16!13;CL:0002202!1.85e-11!9;CL:0002632!1.85e-11!9;CL:0000181!3.34e-08!12;CL:0000417!3.34e-08!12;CL:0000668!3.34e-08!12;CL:0000412!3.34e-08!12;CL:0000182!3.34e-08!12;CL:0002251!4.07e-08!20
|ontology_enrichment_disease=DOID:305!6.74e-15!106;DOID:1749!6.46e-12!14;DOID:0050687!3.07e-09!143
|ontology_enrichment_disease=DOID:305!1.55e-15!106;DOID:1749!1.99e-13!14;DOID:0050687!1.70e-10!143;DOID:7!6.91e-07!39
|ontology_enrichment_uberon=UBERON:0004119!2.94e-23!169;UBERON:0000925!2.94e-23!169;UBERON:0006595!2.94e-23!169;UBERON:0005911!1.05e-19!82;UBERON:0001007!4.58e-19!155;UBERON:0001555!4.58e-19!155;UBERON:0007026!4.58e-19!155;UBERON:0005177!1.40e-17!107;UBERON:0004921!1.54e-17!129;UBERON:0004185!1.54e-17!129;UBERON:0000466!9.51e-15!126;UBERON:0000077!4.65e-14!130;UBERON:0001008!1.48e-12!45;UBERON:0009569!2.61e-12!113;UBERON:0001041!3.48e-12!98;UBERON:0006554!5.54e-12!44;UBERON:0005172!1.91e-11!55;UBERON:0005173!1.91e-11!55;UBERON:0001004!5.11e-11!72;UBERON:0000481!1.08e-10!347;UBERON:0000062!1.51e-10!511;UBERON:0003929!2.91e-10!54;UBERON:0007499!3.15e-10!25;UBERON:0000475!7.83e-10!365;UBERON:0009856!1.34e-09!26;UBERON:0009497!1.53e-09!25;UBERON:0000015!1.53e-09!25;UBERON:0002423!1.53e-09!25;UBERON:0006235!1.53e-09!25;UBERON:0004161!1.53e-09!25;UBERON:0002417!2.65e-09!61;UBERON:0000916!2.65e-09!61;UBERON:0000464!4.17e-09!104;UBERON:0007023!6.99e-09!115;UBERON:0000489!7.21e-09!32;UBERON:0000058!8.69e-09!26;UBERON:0000344!1.15e-08!12;UBERON:0000065!1.29e-08!53;UBERON:0003104!2.20e-08!238;UBERON:0009142!2.20e-08!238;UBERON:0005178!2.91e-08!34;UBERON:0002224!2.91e-08!34;UBERON:0000161!5.67e-08!35;UBERON:0008835!6.82e-08!22;UBERON:0003894!6.82e-08!22;UBERON:0005181!7.65e-08!35;UBERON:0000064!1.07e-07!219;UBERON:0004111!1.25e-07!241;UBERON:0002048!1.83e-07!22;UBERON:0000117!1.83e-07!22;UBERON:0000171!1.83e-07!22;UBERON:0000170!1.83e-07!22;UBERON:0005597!1.83e-07!22;UBERON:0000118!1.83e-07!22;UBERON:0002365!2.08e-07!31;UBERON:0002330!2.08e-07!31;UBERON:0009854!2.40e-07!23;UBERON:0002113!3.35e-07!27;UBERON:0003918!3.35e-07!27;UBERON:0005095!3.35e-07!27;UBERON:0007687!3.35e-07!27;UBERON:0005153!3.97e-07!37;UBERON:0003064!4.20e-07!37;UBERON:0000365!9.53e-07!5;UBERON:0004807!9.66e-07!28;UBERON:0003729!9.86e-07!5
|ontology_enrichment_uberon=UBERON:0004119!5.36e-30!160;UBERON:0000925!5.36e-30!160;UBERON:0006595!5.36e-30!160;UBERON:0005911!4.29e-26!82;UBERON:0001007!1.92e-24!145;UBERON:0001555!1.92e-24!145;UBERON:0007026!1.92e-24!145;UBERON:0004921!1.49e-22!118;UBERON:0005177!5.62e-20!101;UBERON:0001041!1.23e-15!87;UBERON:0003929!7.90e-14!54;UBERON:0000466!8.18e-14!117;UBERON:0007499!1.27e-13!25;UBERON:0009856!6.96e-13!26;UBERON:0009569!7.11e-13!112;UBERON:0009497!8.54e-13!25;UBERON:0000015!8.54e-13!25;UBERON:0002423!8.54e-13!25;UBERON:0006235!8.54e-13!25;UBERON:0004161!8.54e-13!25;UBERON:0001004!1.50e-12!74;UBERON:0000475!6.46e-12!264;UBERON:0011216!7.13e-12!223;UBERON:0001008!5.38e-11!48;UBERON:0005172!8.45e-11!54;UBERON:0005173!8.45e-11!54;UBERON:0000065!9.64e-11!54;UBERON:0008835!1.63e-10!22;UBERON:0003894!1.63e-10!22;UBERON:0005178!1.78e-10!34;UBERON:0002224!1.78e-10!34;UBERON:0006554!2.34e-10!47;UBERON:0000481!4.24e-10!342;UBERON:0005181!5.17e-10!35;UBERON:0009854!7.16e-10!23;UBERON:0000477!7.20e-10!373;UBERON:0000344!1.49e-09!20;UBERON:0002048!4.75e-09!22;UBERON:0000117!4.75e-09!22;UBERON:0000171!4.75e-09!22;UBERON:0000170!4.75e-09!22;UBERON:0005597!4.75e-09!22;UBERON:0000118!4.75e-09!22;UBERON:0000062!5.30e-09!503;UBERON:0002417!5.85e-09!60;UBERON:0000916!5.85e-09!60;UBERON:0000161!1.26e-08!36;UBERON:0004807!2.13e-08!28;UBERON:0005153!2.28e-08!37;UBERON:0000365!4.56e-08!5;UBERON:0002107!4.89e-08!19;UBERON:0006925!4.89e-08!19;UBERON:0008836!4.89e-08!19;UBERON:0005157!6.62e-08!47;UBERON:0002365!1.98e-07!31;UBERON:0002330!1.98e-07!31;UBERON:0002100!2.21e-07!199;UBERON:0004111!2.87e-07!240;UBERON:0007196!3.59e-07!15;UBERON:0001558!3.59e-07!15;UBERON:0000464!4.56e-07!95;UBERON:0003343!4.71e-07!4;UBERON:0004785!4.71e-07!4;UBERON:0008947!7.06e-07!38;UBERON:0003258!7.06e-07!38
|tf_chipseq_enrich=FOXA1#3169;3:11.0814197493855:0.00073475527569867:0.00582621716184749!FOXA2#3170;3:24.6304637526652:6.68983856509345e-05:0.00107439650914931!MAFF#23764;2:37.5435709932968:0.000934477401556032:0.00677043949643499!MAFK#7975;2:18.0671554252199:0.00398367474493681:0.0191147205130228
|tf_chipseq_enrich=FOXA1#3169;3:11.0814197493855:0.00073475527569867:0.00582621716184749!FOXA2#3170;3:24.6304637526652:6.68983856509345e-05:0.00107439650914931!MAFF#23764;2:37.5435709932968:0.000934477401556032:0.00677043949643499!MAFK#7975;2:18.0671554252199:0.00398367474493681:0.0191147205130228
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
}}
}}

Revision as of 15:48, 19 October 2012


Full id: C4264_Small_oral_malignant_Prostate_epidermoid_argyrophil_Urothelial



Phase1 CAGE Peaks

Hg19::chr3:111451248..111451251,+p6@PLCXD2
Hg19::chr3:111451297..111451320,+p3@PLCXD2
Hg19::chr3:111451321..111451372,+p3@PHLDB2


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:0004629phospholipase C activity0.0377386675552978
GO:0004620phospholipase activity0.0377386675552978
GO:0008081phosphoric diester hydrolase activity0.0377386675552978
GO:0016298lipase activity0.0377386675552978
GO:0016042lipid catabolic process0.0377386675552978
GO:0004091carboxylesterase activity0.0402560676798472



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>

Uber Anatomy
Ontology termp-valuen
endoderm-derived structure5.36e-30160
endoderm5.36e-30160
presumptive endoderm5.36e-30160
endo-epithelium4.29e-2682
digestive system1.92e-24145
digestive tract1.92e-24145
primitive gut1.92e-24145
subdivision of digestive tract1.49e-22118
trunk region element5.62e-20101
foregut1.23e-1587
gut epithelium7.90e-1454
immaterial anatomical entity8.18e-14117
epithelial sac1.27e-1325
sac6.96e-1326
subdivision of trunk7.11e-13112
epithelium of foregut-midgut junction8.54e-1325
anatomical boundary8.54e-1325
hepatobiliary system8.54e-1325
foregut-midgut junction8.54e-1325
septum transversum8.54e-1325
respiratory system1.50e-1274
organism subdivision6.46e-12264
organ system subdivision7.13e-12223
renal system5.38e-1148
abdomen element8.45e-1154
abdominal segment element8.45e-1154
respiratory tract9.64e-1154
hepatic diverticulum1.63e-1022
liver primordium1.63e-1022
thoracic cavity element1.78e-1034
thoracic cavity1.78e-1034
urinary system structure2.34e-1047
multi-tissue structure4.24e-10342
thoracic segment organ5.17e-1035
digestive tract diverticulum7.16e-1023
anatomical cluster7.20e-10373
mucosa1.49e-0920
lung4.75e-0922
respiratory tube4.75e-0922
respiration organ4.75e-0922
pair of lungs4.75e-0922
lung primordium4.75e-0922
lung bud4.75e-0922
organ5.30e-09503
abdominal segment of trunk5.85e-0960
abdomen5.85e-0960
orifice1.26e-0836
respiratory system epithelium2.13e-0828
epithelial bud2.28e-0837
urothelium4.56e-085
liver4.89e-0819
digestive gland4.89e-0819
liver bud4.89e-0819
epithelial fold6.62e-0847
exocrine gland1.98e-0731
exocrine system1.98e-0731
trunk2.21e-07199
anatomical conduit2.87e-07240
tracheobronchial tree3.59e-0715
lower respiratory tract3.59e-0715
anatomical space4.56e-0795
mucosa of oral region4.71e-074
respiratory system mucosa4.71e-074
respiratory primordium7.06e-0738
endoderm of foregut7.06e-0738
Disease
Ontology termp-valuen
carcinoma1.55e-15106
squamous cell carcinoma1.99e-1314
cell type cancer1.70e-10143
disease of anatomical entity6.91e-0739


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

(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF#promotersEnrichmentp-valueq-value
FOXA1#3169311.08141974938550.000734755275698670.00582621716184749
FOXA2#3170324.63046375266526.68983856509345e-050.00107439650914931
MAFF#23764237.54357099329680.0009344774015560320.00677043949643499
MAFK#7975218.06715542521990.003983674744936810.0191147205130228



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.

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