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|gostat_on_coexpression_clusters=GO:0006695!cholesterol biosynthetic process!7.09273028841617e-05!4598;4597$GO:0016126!sterol biosynthetic process!7.09273028841617e-05!4598;4597$GO:0008299!isoprenoid biosynthetic process!7.09273028841617e-05!4598;4597$GO:0006720!isoprenoid metabolic process!9.38540934350304e-05!4598;4597$GO:0008203!cholesterol metabolic process!0.000227604976015694!4598;4597$GO:0006694!steroid biosynthetic process!0.000236560699903554!4598;4597$GO:0016125!sterol metabolic process!0.000236560699903554!4598;4597$GO:0008202!steroid metabolic process!0.00116921618164445!4598;4597$GO:0009235!cobalamin metabolic process!0.00173694229634674!326625$GO:0009236!cobalamin biosynthetic process!0.00173694229634674!326625$GO:0008817!cob(I)yrinic acid a,c-diamide adenosyltransferase activity!0.00173694229634674!326625$GO:0008610!lipid biosynthetic process!0.00173694229634674!4598;4597$GO:0004163!diphosphomevalonate decarboxylase activity!0.00183231096230755!4597$GO:0004496!mevalonate kinase activity!0.00183231096230755!4598$GO:0009058!biosynthetic process!0.00183231096230755!4598;326625;4597$GO:0006066!alcohol metabolic process!0.00230514148065186!4598;4597$GO:0005524!ATP binding!0.00230514148065186!4598;326625;4597$GO:0032559!adenyl ribonucleotide binding!0.00230514148065186!4598;326625;4597$GO:0030554!adenyl nucleotide binding!0.00247528120164151!4598;326625;4597$GO:0016740!transferase activity!0.00324351844010408!4598;326625;4597$GO:0032553!ribonucleotide binding!0.00365700248173288!4598;326625;4597$GO:0032555!purine ribonucleotide binding!0.00365700248173288!4598;326625;4597$GO:0017076!purine nucleotide binding!0.00390457841089428!4598;326625;4597$GO:0044255!cellular lipid metabolic process!0.00458755989077455!4598;4597$GO:0000166!nucleotide binding!0.00577037226642438!4598;326625;4597$GO:0006779!porphyrin biosynthetic process!0.00616669659674457!326625$GO:0006629!lipid metabolic process!0.00616669659674457!4598;4597$GO:0033014!tetrapyrrole biosynthetic process!0.0066630865719394!326625$GO:0006778!porphyrin metabolic process!0.0066630865719394!326625$GO:0033013!tetrapyrrole metabolic process!0.00727100775665974!326625$GO:0042364!water-soluble vitamin biosynthetic process!0.00727100775665974!326625$GO:0009110!vitamin biosynthetic process!0.00764686651571054!326625$GO:0016310!phosphorylation!0.0106005592510717!4598;4597$GO:0016831!carboxy-lyase activity!0.0106005592510717!4597$GO:0006767!water-soluble vitamin metabolic process!0.0117660113535449!326625$GO:0016830!carbon-carbon lyase activity!0.0133441943385484!4597$GO:0016301!kinase activity!0.0133441943385484!4598;4597$GO:0006793!phosphorus metabolic process!0.0133441943385484!4598;4597$GO:0006796!phosphate metabolic process!0.0133441943385484!4598;4597$GO:0016765!transferase activity, transferring alkyl or aryl (other than methyl) groups!0.0133441943385484!326625$GO:0006766!vitamin metabolic process!0.0134880903701458!326625$GO:0042579!microbody!0.0149481784519316!4598$GO:0005777!peroxisome!0.0149481784519316!4598$GO:0016772!transferase activity, transferring phosphorus-containing groups!0.0159393085126707!4598;4597$GO:0046483!heterocycle metabolic process!0.0185525498427985!326625$GO:0051188!cofactor biosynthetic process!0.0306326844695493!326625$GO:0016829!lyase activity!0.0378202022513722!4597$GO:0051186!cofactor metabolic process!0.0456033012209741!326625$GO:0042802!identical protein binding!0.0473782813292496!4598
|gostat_on_coexpression_clusters=GO:0006695!cholesterol biosynthetic process!7.09273028841617e-05!4598;4597$GO:0016126!sterol biosynthetic process!7.09273028841617e-05!4598;4597$GO:0008299!isoprenoid biosynthetic process!7.09273028841617e-05!4598;4597$GO:0006720!isoprenoid metabolic process!9.38540934350304e-05!4598;4597$GO:0008203!cholesterol metabolic process!0.000227604976015694!4598;4597$GO:0006694!steroid biosynthetic process!0.000236560699903554!4598;4597$GO:0016125!sterol metabolic process!0.000236560699903554!4598;4597$GO:0008202!steroid metabolic process!0.00116921618164445!4598;4597$GO:0009235!cobalamin metabolic process!0.00173694229634674!326625$GO:0009236!cobalamin biosynthetic process!0.00173694229634674!326625$GO:0008817!cob(I)yrinic acid a,c-diamide adenosyltransferase activity!0.00173694229634674!326625$GO:0008610!lipid biosynthetic process!0.00173694229634674!4598;4597$GO:0004163!diphosphomevalonate decarboxylase activity!0.00183231096230755!4597$GO:0004496!mevalonate kinase activity!0.00183231096230755!4598$GO:0009058!biosynthetic process!0.00183231096230755!4598;326625;4597$GO:0006066!alcohol metabolic process!0.00230514148065186!4598;4597$GO:0005524!ATP binding!0.00230514148065186!4598;326625;4597$GO:0032559!adenyl ribonucleotide binding!0.00230514148065186!4598;326625;4597$GO:0030554!adenyl nucleotide binding!0.00247528120164151!4598;326625;4597$GO:0016740!transferase activity!0.00324351844010408!4598;326625;4597$GO:0032553!ribonucleotide binding!0.00365700248173288!4598;326625;4597$GO:0032555!purine ribonucleotide binding!0.00365700248173288!4598;326625;4597$GO:0017076!purine nucleotide binding!0.00390457841089428!4598;326625;4597$GO:0044255!cellular lipid metabolic process!0.00458755989077455!4598;4597$GO:0000166!nucleotide binding!0.00577037226642438!4598;326625;4597$GO:0006779!porphyrin biosynthetic process!0.00616669659674457!326625$GO:0006629!lipid metabolic process!0.00616669659674457!4598;4597$GO:0033014!tetrapyrrole biosynthetic process!0.0066630865719394!326625$GO:0006778!porphyrin metabolic process!0.0066630865719394!326625$GO:0033013!tetrapyrrole metabolic process!0.00727100775665974!326625$GO:0042364!water-soluble vitamin biosynthetic process!0.00727100775665974!326625$GO:0009110!vitamin biosynthetic process!0.00764686651571054!326625$GO:0016310!phosphorylation!0.0106005592510717!4598;4597$GO:0016831!carboxy-lyase activity!0.0106005592510717!4597$GO:0006767!water-soluble vitamin metabolic process!0.0117660113535449!326625$GO:0016830!carbon-carbon lyase activity!0.0133441943385484!4597$GO:0016301!kinase activity!0.0133441943385484!4598;4597$GO:0006793!phosphorus metabolic process!0.0133441943385484!4598;4597$GO:0006796!phosphate metabolic process!0.0133441943385484!4598;4597$GO:0016765!transferase activity, transferring alkyl or aryl (other than methyl) groups!0.0133441943385484!326625$GO:0006766!vitamin metabolic process!0.0134880903701458!326625$GO:0042579!microbody!0.0149481784519316!4598$GO:0005777!peroxisome!0.0149481784519316!4598$GO:0016772!transferase activity, transferring phosphorus-containing groups!0.0159393085126707!4598;4597$GO:0046483!heterocycle metabolic process!0.0185525498427985!326625$GO:0051188!cofactor biosynthetic process!0.0306326844695493!326625$GO:0016829!lyase activity!0.0378202022513722!4597$GO:0051186!cofactor metabolic process!0.0456033012209741!326625$GO:0042802!identical protein binding!0.0473782813292496!4598
|id=C3237
|id=C3237
|ontology_enrichment_celltype=CL:0000220!9.00e-11!246;CL:0002321!2.47e-10!248;CL:0000066!4.16e-10!254;CL:1000449!7.25e-08!16;CL:0002681!7.03e-07!13;CL:0002584!7.03e-07!13;CL:1000507!9.62e-07!12;CL:1000494!9.62e-07!12
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000119!7.12e-24!312;UBERON:0000483!4.86e-23!309;UBERON:0000481!2.67e-19!347;UBERON:0000475!8.85e-17!365;UBERON:0000477!5.84e-15!286;UBERON:0005256!2.55e-13!143;UBERON:0000064!2.69e-13!219;UBERON:0002100!1.18e-11!216;UBERON:0000025!1.72e-10!194;UBERON:0004111!1.88e-10!241;UBERON:0003104!5.57e-10!238;UBERON:0009142!5.57e-10!238;UBERON:0000033!1.28e-08!123;UBERON:0000914!2.83e-08!83;UBERON:0002329!2.83e-08!83;UBERON:0003077!2.83e-08!83;UBERON:0003059!2.83e-08!83;UBERON:0007282!2.83e-08!83;UBERON:0009618!2.83e-08!83;UBERON:0007285!2.83e-08!83;UBERON:0009569!4.05e-08!113;UBERON:0004121!6.00e-08!169;UBERON:0004211!7.25e-08!16;UBERON:0001285!7.25e-08!16;UBERON:0007684!7.25e-08!16;UBERON:0003220!7.25e-08!16;UBERON:0004208!7.25e-08!16;UBERON:0000063!7.47e-08!97;UBERON:0000153!1.05e-07!129;UBERON:0007811!1.05e-07!129;UBERON:0000924!1.10e-07!173;UBERON:0006601!1.10e-07!173;UBERON:0006555!1.47e-07!17;UBERON:0005103!1.47e-07!17;UBERON:0000083!1.47e-07!17;UBERON:0009201!1.47e-07!17;UBERON:0004819!1.47e-07!17;UBERON:0006553!1.47e-07!17;UBERON:0003074!1.47e-07!17;UBERON:0003060!1.47e-07!17;UBERON:0005177!2.12e-07!107;UBERON:0005172!5.63e-07!55;UBERON:0005173!5.63e-07!55;UBERON:0003914!5.63e-07!118;UBERON:0000486!6.40e-07!82;UBERON:0001225!7.03e-07!13;UBERON:0008987!7.03e-07!13;UBERON:0001048!7.98e-07!168;UBERON:0000080!8.44e-07!18;UBERON:0002120!8.44e-07!18;UBERON:0004875!8.44e-07!18;UBERON:0005721!8.44e-07!18;UBERON:0005754!8.44e-07!18;UBERON:0007297!8.44e-07!18;UBERON:0000490!8.68e-07!138;UBERON:0002417!9.47e-07!61;UBERON:0000916!9.47e-07!61;UBERON:0009773!9.62e-07!12;UBERON:0001231!9.62e-07!12;UBERON:0004810!9.62e-07!12
}}
}}

Revision as of 14:34, 21 May 2012


Full id: C3237_Alveolar_Keratocytes_Bronchial_Hepatic_Adipocyte_Mammary_Mesenchymal



Phase1 CAGE Peaks

Hg19::chr12:110011288..110011347,-p1@MMAB
Hg19::chr12:110011571..110011644,+p1@MVK
Hg19::chr16:88729473..88729561,-p1@MVD


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:0006695cholesterol biosynthetic process7.09273028841617e-05
GO:0016126sterol biosynthetic process7.09273028841617e-05
GO:0008299isoprenoid biosynthetic process7.09273028841617e-05
GO:0006720isoprenoid metabolic process9.38540934350304e-05
GO:0008203cholesterol metabolic process0.000227604976015694
GO:0006694steroid biosynthetic process0.000236560699903554
GO:0016125sterol metabolic process0.000236560699903554
GO:0008202steroid metabolic process0.00116921618164445
GO:0009235cobalamin metabolic process0.00173694229634674
GO:0009236cobalamin biosynthetic process0.00173694229634674
GO:0008817cob(I)yrinic acid a,c-diamide adenosyltransferase activity0.00173694229634674
GO:0008610lipid biosynthetic process0.00173694229634674
GO:0004163diphosphomevalonate decarboxylase activity0.00183231096230755
GO:0004496mevalonate kinase activity0.00183231096230755
GO:0009058biosynthetic process0.00183231096230755
GO:0006066alcohol metabolic process0.00230514148065186
GO:0005524ATP binding0.00230514148065186
GO:0032559adenyl ribonucleotide binding0.00230514148065186
GO:0030554adenyl nucleotide binding0.00247528120164151
GO:0016740transferase activity0.00324351844010408
GO:0032553ribonucleotide binding0.00365700248173288
GO:0032555purine ribonucleotide binding0.00365700248173288
GO:0017076purine nucleotide binding0.00390457841089428
GO:0044255cellular lipid metabolic process0.00458755989077455
GO:0000166nucleotide binding0.00577037226642438
GO:0006779porphyrin biosynthetic process0.00616669659674457
GO:0006629lipid metabolic process0.00616669659674457
GO:0033014tetrapyrrole biosynthetic process0.0066630865719394
GO:0006778porphyrin metabolic process0.0066630865719394
GO:0033013tetrapyrrole metabolic process0.00727100775665974
GO:0042364water-soluble vitamin biosynthetic process0.00727100775665974
GO:0009110vitamin biosynthetic process0.00764686651571054
GO:0016310phosphorylation0.0106005592510717
GO:0016831carboxy-lyase activity0.0106005592510717
GO:0006767water-soluble vitamin metabolic process0.0117660113535449
GO:0016830carbon-carbon lyase activity0.0133441943385484
GO:0016301kinase activity0.0133441943385484
GO:0006793phosphorus metabolic process0.0133441943385484
GO:0006796phosphate metabolic process0.0133441943385484
GO:0016765transferase activity, transferring alkyl or aryl (other than methyl) groups0.0133441943385484
GO:0006766vitamin metabolic process0.0134880903701458
GO:0042579microbody0.0149481784519316
GO:0005777peroxisome0.0149481784519316
GO:0016772transferase activity, transferring phosphorus-containing groups0.0159393085126707
GO:0046483heterocycle metabolic process0.0185525498427985
GO:0051188cofactor biosynthetic process0.0306326844695493
GO:0016829lyase activity0.0378202022513722
GO:0051186cofactor metabolic process0.0456033012209741
GO:0042802identical protein binding0.0473782813292496



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
embryonic cell2.47e-10248
epithelial cell4.16e-10254
epithelial cell of nephron7.25e-0816
kidney cortical cell7.03e-0713
renal cortical epithelial cell7.03e-0713
kidney tubule cell9.62e-0712
nephron tubule epithelial cell9.62e-0712
Uber Anatomy
Ontology termp-valuen
cell layer7.12e-24312
epithelium4.86e-23309
multi-tissue structure2.67e-19347
organism subdivision8.85e-17365
anatomical cluster5.84e-15286
trunk mesenchyme2.55e-13143
organ part2.69e-13219
trunk1.18e-11216
tube1.72e-10194
anatomical conduit1.88e-10241
mesenchyme5.57e-10238
entire embryonic mesenchyme5.57e-10238
head1.28e-08123
somite2.83e-0883
paraxial mesoderm2.83e-0883
presomitic mesoderm2.83e-0883
presumptive segmental plate2.83e-0883
trunk paraxial mesoderm2.83e-0883
presumptive paraxial mesoderm2.83e-0883
subdivision of trunk4.05e-08113
ectoderm-derived structure6.00e-08169
nephron epithelium7.25e-0816
nephron7.25e-0816
uriniferous tubule7.25e-0816
metanephric mesenchyme7.25e-0816
nephrogenic mesenchyme7.25e-0816
organ segment7.47e-0897
anterior region of body1.05e-07129
craniocervical region1.05e-07129
ectoderm1.10e-07173
presumptive ectoderm1.10e-07173
excretory tube1.47e-0717
mesonephric epithelium1.47e-0717
mesonephric tubule1.47e-0717
nephric duct1.47e-0717
kidney epithelium1.47e-0717
renal duct1.47e-0717
mesonephric duct1.47e-0717
pronephric duct1.47e-0717
trunk region element2.12e-07107
abdomen element5.63e-0755
abdominal segment element5.63e-0755
epithelial tube5.63e-07118
multilaminar epithelium6.40e-0782
cortex of kidney7.03e-0713
renal parenchyma7.03e-0713
primordium7.98e-07168
mesonephros8.44e-0718
pronephros8.44e-0718
nephrogenic cord8.44e-0718
pronephric mesoderm8.44e-0718
rostral part of nephrogenic cord8.44e-0718
presumptive pronephric mesoderm8.44e-0718
unilaminar epithelium8.68e-07138
abdominal segment of trunk9.47e-0761
abdomen9.47e-0761
renal tubule9.62e-0712
nephron tubule9.62e-0712
nephron tubule epithelium9.62e-0712


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.

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