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|full_id=C379_Preadipocyte_Adipocyte_tenocyte_Chondrocyte_basal_aorta_trachea
|full_id=C379_Preadipocyte_Adipocyte_tenocyte_Chondrocyte_basal_aorta_trachea
|id=C379
|id=C379
|ontology_enrichment_celltype=CL:0000055!5.19e-16!180;CL:0000057!7.01e-11!75;CL:0000136!4.22e-09!15
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0007023!2.41e-23!115;UBERON:0000475!6.81e-17!365;UBERON:0000073!1.18e-16!94;UBERON:0001016!1.18e-16!94;UBERON:0005743!3.23e-16!86;UBERON:0001017!1.78e-14!82;UBERON:0001049!6.68e-14!57;UBERON:0005068!6.68e-14!57;UBERON:0006241!6.68e-14!57;UBERON:0007135!6.68e-14!57;UBERON:0000924!1.32e-13!173;UBERON:0006601!1.32e-13!173;UBERON:0002346!2.51e-13!90;UBERON:0004121!4.79e-13!169;UBERON:0003075!8.76e-13!86;UBERON:0007284!8.76e-13!86;UBERON:0002616!9.34e-13!59;UBERON:0000955!2.38e-11!69;UBERON:0006238!2.38e-11!69;UBERON:0000153!2.51e-11!129;UBERON:0007811!2.51e-11!129;UBERON:0000033!6.09e-11!123;UBERON:0003080!2.32e-09!42;UBERON:0002780!5.54e-09!41;UBERON:0001890!5.54e-09!41;UBERON:0006240!5.54e-09!41;UBERON:0000468!2.70e-08!659;UBERON:0003056!5.74e-08!61;UBERON:0000481!7.57e-08!347;UBERON:0001893!1.01e-07!34;UBERON:0002020!1.06e-07!34;UBERON:0003528!1.06e-07!34;UBERON:0002791!1.29e-07!33;UBERON:0001869!3.35e-07!32
}}
}}

Revision as of 14:40, 21 May 2012


Full id: C379_Preadipocyte_Adipocyte_tenocyte_Chondrocyte_basal_aorta_trachea



Phase1 CAGE Peaks

Hg19::chr7:73442422..73442447,+p2@ELN
Hg19::chr7:73442457..73442475,+p3@ELN
Hg19::chr7:73442494..73442517,+p1@ELN
Hg19::chr7:73469042..73469059,+p@chr7:73469042..73469059
+
Hg19::chr7:73470651..73470669,+p@chr7:73470651..73470669
+
Hg19::chr7:73477638..73477666,+p@chr7:73477638..73477666
+
Hg19::chr7:73477950..73477995,+p@chr7:73477950..73477995
+
Hg19::chr7:73480017..73480028,+p@chr7:73480017..73480028
+
Hg19::chr7:73482988..73482997,+p24@ELN
Hg19::chr7:73483140..73483149,+p31@ELN
Hg19::chr7:73483243..73483250,+p32@ELN
Hg19::chr7:73483251..73483276,+p12@ELN
Hg19::chr7:73483317..73483330,+p15@ELN
Hg19::chr7:73483322..73483337,-p@chr7:73483322..73483337
-
Hg19::chr7:73483368..73483378,+p21@ELN
Hg19::chr7:73483383..73483410,+p4@ELN
Hg19::chr7:73483422..73483429,+p27@ELN
Hg19::chr7:73483434..73483454,+p5@ELN
Hg19::chr7:73483509..73483536,+p10@ELN
Hg19::chr7:73483549..73483572,+p6@ELN
Hg19::chr7:73483600..73483621,+p13@ELN
Hg19::chr7:73483627..73483640,+p11@ELN
Hg19::chr7:73483650..73483661,+p22@ELN
Hg19::chr7:73483658..73483686,-p@chr7:73483658..73483686
-
Hg19::chr7:73483727..73483738,-p@chr7:73483727..73483738
-
Hg19::chr7:73483740..73483747,+p26@ELN
Hg19::chr7:73483843..73483855,+p23@ELN
Hg19::chr7:73483852..73483863,-p@chr7:73483852..73483863
-
Hg19::chr7:73483886..73483914,-p@chr7:73483886..73483914
-


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
non-terminally differentiated cell5.19e-16180
fibroblast7.01e-1175
fat cell4.22e-0915
Uber Anatomy
Ontology termp-valuen
adult organism2.41e-23115
organism subdivision6.81e-17365
regional part of nervous system1.18e-1694
nervous system1.18e-1694
central nervous system1.78e-1482
neural tube6.68e-1457
neural rod6.68e-1457
future spinal cord6.68e-1457
neural keel6.68e-1457
ectoderm1.32e-13173
presumptive ectoderm1.32e-13173
neurectoderm2.51e-1390
ectoderm-derived structure4.79e-13169
neural plate8.76e-1386
presumptive neural plate8.76e-1386
regional part of brain9.34e-1359
brain2.38e-1169
future brain2.38e-1169
anterior region of body2.51e-11129
craniocervical region2.51e-11129
head6.09e-11123
anterior neural tube2.32e-0942
regional part of forebrain5.54e-0941
forebrain5.54e-0941
future forebrain5.54e-0941
multi-cellular organism2.70e-08659
pre-chordal neural plate5.74e-0861
multi-tissue structure7.57e-08347
telencephalon1.01e-0734
gray matter1.06e-0734
brain grey matter1.06e-0734
regional part of telencephalon1.29e-0733
cerebral hemisphere3.35e-0732


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.