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|full_id=C4488_Alveolar_Renal_Mesenchymal_leiomyoma_Hepatocyte_tubular_small
|full_id=C4488_Alveolar_Renal_Mesenchymal_leiomyoma_Hepatocyte_tubular_small
|id=C4488
|id=C4488
|ontology_enrichment_celltype=CL:0000066!3.43e-31!254;CL:0000220!7.15e-31!246;CL:0002321!9.83e-31!248;CL:0000548!1.52e-29!679;CL:0000004!1.52e-29!679;CL:0000255!1.52e-29!679;CL:0000012!3.17e-29!682;CL:0000222!2.72e-25!119;CL:0000144!4.07e-23!625;CL:0002371!7.22e-19!591;CL:0000003!5.37e-18!722;CL:0000063!7.95e-15!578;CL:0000213!9.00e-14!57;CL:0000215!9.00e-14!57;CL:0000055!3.70e-12!180;CL:0000183!1.21e-11!59;CL:0000192!3.07e-11!42;CL:0000514!3.07e-11!42;CL:0000076!7.26e-11!62;CL:0000680!1.05e-10!57;CL:0000056!1.05e-10!57;CL:0000355!1.05e-10!57;CL:0000359!2.81e-10!32;CL:0000187!1.04e-09!54;CL:0002078!2.73e-09!44;CL:0000223!2.86e-09!59;CL:1000449!4.28e-09!16;CL:0000115!2.45e-08!35;CL:0000393!2.47e-08!60;CL:0000211!2.47e-08!60;CL:1000497!7.48e-08!18;CL:0002518!7.48e-08!18;CL:1000507!7.78e-08!12;CL:1000494!7.78e-08!12;CL:0002076!1.26e-07!43;CL:0000077!1.36e-07!19;CL:0002681!3.42e-07!13;CL:0002584!3.42e-07!13;CL:0002139!7.22e-07!24
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0003914!1.95e-25!118;UBERON:0002100!4.66e-16!216;UBERON:0000490!9.02e-16!138;UBERON:0002049!1.12e-15!79;UBERON:0007798!1.12e-15!79;UBERON:0000055!2.04e-15!69;UBERON:0001637!1.07e-14!42;UBERON:0003509!1.07e-14!42;UBERON:0004572!1.07e-14!42;UBERON:0005256!2.78e-14!143;UBERON:0004872!5.63e-14!84;UBERON:0004535!1.17e-13!110;UBERON:0001009!1.47e-13!113;UBERON:0001981!2.44e-13!60;UBERON:0007500!2.44e-13!60;UBERON:0004537!2.44e-13!60;UBERON:0006965!2.44e-13!60;UBERON:0000926!5.64e-13!448;UBERON:0004120!5.64e-13!448;UBERON:0006603!5.64e-13!448;UBERON:0003104!2.09e-12!238;UBERON:0009142!2.09e-12!238;UBERON:0004573!1.42e-11!33;UBERON:0004571!1.42e-11!33;UBERON:0009569!2.05e-11!113;UBERON:0000486!1.23e-09!82;UBERON:0000466!2.34e-09!126;UBERON:0004211!4.28e-09!16;UBERON:0001285!4.28e-09!16;UBERON:0007684!4.28e-09!16;UBERON:0003220!4.28e-09!16;UBERON:0004208!4.28e-09!16;UBERON:0001134!3.26e-08!61;UBERON:0002036!3.26e-08!61;UBERON:0003082!3.26e-08!61;UBERON:0004119!3.56e-08!169;UBERON:0000925!3.56e-08!169;UBERON:0006595!3.56e-08!169;UBERON:0002385!3.99e-08!63;UBERON:0001015!3.99e-08!63;UBERON:0000383!3.99e-08!63;UBERON:0006555!4.87e-08!17;UBERON:0005103!4.87e-08!17;UBERON:0000083!4.87e-08!17;UBERON:0009201!4.87e-08!17;UBERON:0004819!4.87e-08!17;UBERON:0006553!4.87e-08!17;UBERON:0003074!4.87e-08!17;UBERON:0003060!4.87e-08!17;UBERON:0009773!7.78e-08!12;UBERON:0001231!7.78e-08!12;UBERON:0004810!7.78e-08!12;UBERON:0004290!7.81e-08!70;UBERON:0000353!8.85e-08!17;UBERON:0002417!1.49e-07!61;UBERON:0000916!1.49e-07!61;UBERON:0006554!2.31e-07!44;UBERON:0001225!3.42e-07!13;UBERON:0008987!3.42e-07!13;UBERON:0005177!3.56e-07!107;UBERON:0000080!4.39e-07!18;UBERON:0002120!4.39e-07!18;UBERON:0004875!4.39e-07!18;UBERON:0005721!4.39e-07!18;UBERON:0005754!4.39e-07!18;UBERON:0007297!4.39e-07!18;UBERON:0001008!4.45e-07!45;UBERON:0000947!6.38e-07!21;UBERON:0010191!6.38e-07!21
}}
}}

Revision as of 14:49, 21 May 2012


Full id: C4488_Alveolar_Renal_Mesenchymal_leiomyoma_Hepatocyte_tubular_small



Phase1 CAGE Peaks

Hg19::chr5:179233795..179233828,-p2@MGAT4B
Hg19::chr5:179233829..179233834,-p6@MGAT4B
Hg19::chr5:179233835..179233873,-p1@MGAT4B


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
epithelial cell3.43e-31254
embryonic cell9.83e-31248
animal cell1.52e-29679
eukaryotic cell1.52e-29679
mesodermal cell2.72e-25119
somatic cell7.22e-19591
native cell5.37e-18722
lining cell9.00e-1457
barrier cell9.00e-1457
non-terminally differentiated cell3.70e-12180
contractile cell1.21e-1159
smooth muscle cell3.07e-1142
smooth muscle myoblast3.07e-1142
squamous epithelial cell7.26e-1162
muscle precursor cell1.05e-1057
myoblast1.05e-1057
multi-potent skeletal muscle stem cell1.05e-1057
vascular associated smooth muscle cell2.81e-1032
muscle cell1.04e-0954
meso-epithelial cell2.73e-0944
endodermal cell2.86e-0959
epithelial cell of nephron4.28e-0916
endothelial cell2.45e-0835
electrically responsive cell2.47e-0860
electrically active cell2.47e-0860
kidney cell7.48e-0818
kidney epithelial cell7.48e-0818
kidney tubule cell7.78e-0812
nephron tubule epithelial cell7.78e-0812
endo-epithelial cell1.26e-0743
mesothelial cell1.36e-0719
kidney cortical cell3.42e-0713
renal cortical epithelial cell3.42e-0713
endothelial cell of vascular tree7.22e-0724
Uber Anatomy
Ontology termp-valuen
epithelial tube1.95e-25118
trunk4.66e-16216
unilaminar epithelium9.02e-16138
vasculature1.12e-1579
vascular system1.12e-1579
vessel2.04e-1569
artery1.07e-1442
arterial blood vessel1.07e-1442
arterial system1.07e-1442
trunk mesenchyme2.78e-14143
splanchnic layer of lateral plate mesoderm5.63e-1484
cardiovascular system1.17e-13110
circulatory system1.47e-13113
blood vessel2.44e-1360
epithelial tube open at both ends2.44e-1360
blood vasculature2.44e-1360
vascular cord2.44e-1360
mesoderm5.64e-13448
mesoderm-derived structure5.64e-13448
presumptive mesoderm5.64e-13448
mesenchyme2.09e-12238
entire embryonic mesenchyme2.09e-12238
systemic artery1.42e-1133
systemic arterial system1.42e-1133
subdivision of trunk2.05e-11113
multilaminar epithelium1.23e-0982
immaterial anatomical entity2.34e-09126
nephron epithelium4.28e-0916
nephron4.28e-0916
uriniferous tubule4.28e-0916
metanephric mesenchyme4.28e-0916
nephrogenic mesenchyme4.28e-0916
skeletal muscle tissue3.26e-0861
striated muscle tissue3.26e-0861
myotome3.26e-0861
endoderm-derived structure3.56e-08169
endoderm3.56e-08169
presumptive endoderm3.56e-08169
muscle tissue3.99e-0863
musculature3.99e-0863
musculature of body3.99e-0863
excretory tube4.87e-0817
mesonephric epithelium4.87e-0817
mesonephric tubule4.87e-0817
nephric duct4.87e-0817
kidney epithelium4.87e-0817
renal duct4.87e-0817
mesonephric duct4.87e-0817
pronephric duct4.87e-0817
renal tubule7.78e-0812
nephron tubule7.78e-0812
nephron tubule epithelium7.78e-0812
dermomyotome7.81e-0870
parenchyma8.85e-0817
abdominal segment of trunk1.49e-0761
abdomen1.49e-0761
urinary system structure2.31e-0744
cortex of kidney3.42e-0713
renal parenchyma3.42e-0713
trunk region element3.56e-07107
mesonephros4.39e-0718


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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