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|gostat_on_coexpression_clusters=GO:0008745!N-acetylmuramoyl-L-alanine amidase activity!0.00976204444926934!57115$GO:0016019!peptidoglycan receptor activity!0.00976204444926934!57115$GO:0009253!peptidoglycan catabolic process!0.00976204444926934!57115$GO:0000270!peptidoglycan metabolic process!0.00976204444926934!57115$GO:0050830!defense response to Gram-positive bacterium!0.00976204444926934!57115$GO:0016045!detection of bacterium!0.00976204444926934!57115$GO:0042834!peptidoglycan binding!0.00976204444926934!57115$GO:0008329!pattern recognition receptor activity!0.0113880460240682!57115$GO:0009595!detection of biotic stimulus!0.0118091301495636!57115$GO:0009581!detection of external stimulus!0.0379177019804636!57115
|gostat_on_coexpression_clusters=GO:0008745!N-acetylmuramoyl-L-alanine amidase activity!0.00976204444926934!57115$GO:0016019!peptidoglycan receptor activity!0.00976204444926934!57115$GO:0009253!peptidoglycan catabolic process!0.00976204444926934!57115$GO:0000270!peptidoglycan metabolic process!0.00976204444926934!57115$GO:0050830!defense response to Gram-positive bacterium!0.00976204444926934!57115$GO:0016045!detection of bacterium!0.00976204444926934!57115$GO:0042834!peptidoglycan binding!0.00976204444926934!57115$GO:0008329!pattern recognition receptor activity!0.0113880460240682!57115$GO:0009595!detection of biotic stimulus!0.0118091301495636!57115$GO:0009581!detection of external stimulus!0.0379177019804636!57115
|id=C1451
|id=C1451
|ontology_enrichment_celltype=CL:0000066!1.14e-18!254;CL:0002076!2.14e-13!43;CL:0000220!1.43e-10!246;CL:0002321!1.52e-10!248;CL:0002368!1.95e-08!13;CL:0000223!2.71e-08!59;CL:0000076!1.61e-07!62
|ontology_enrichment_disease=DOID:1749!6.39e-07!14
|ontology_enrichment_uberon=UBERON:0000464!1.14e-10!104;UBERON:0001637!5.42e-09!42;UBERON:0003509!5.42e-09!42;UBERON:0004572!5.42e-09!42;UBERON:0000475!1.35e-08!365;UBERON:0001004!5.58e-08!72;UBERON:0004573!1.58e-07!33;UBERON:0004571!1.58e-07!33;UBERON:0000483!1.72e-07!309;UBERON:0000119!2.46e-07!312;UBERON:0001981!2.64e-07!60;UBERON:0007500!2.64e-07!60;UBERON:0004537!2.64e-07!60;UBERON:0006965!2.64e-07!60;UBERON:0002100!7.66e-07!216;UBERON:0000161!9.75e-07!35;UBERON:0002049!9.84e-07!79;UBERON:0007798!9.84e-07!79
}}
}}

Revision as of 14:11, 21 May 2012


Full id: C1451_immature_Sebocyte_squamous_Keratinocyte_Corneal_Small_Urothelial



Phase1 CAGE Peaks

Hg19::chr19:3136918..3136931,-p@chr19:3136918..3136931
-
Hg19::chr1:153321301..153321325,-p1@PGLYRP4
Hg19::chr1:24646263..24646277,+p4@GRHL3
Hg19::chr1:27188807..27188826,+p@chr1:27188807..27188826
+
Hg19::chr1:6550625..6550646,-p3@PLEKHG5
Hg19::chr20:33880219..33880234,-p1@FAM83C


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:0008745N-acetylmuramoyl-L-alanine amidase activity0.00976204444926934
GO:0016019peptidoglycan receptor activity0.00976204444926934
GO:0009253peptidoglycan catabolic process0.00976204444926934
GO:0000270peptidoglycan metabolic process0.00976204444926934
GO:0050830defense response to Gram-positive bacterium0.00976204444926934
GO:0016045detection of bacterium0.00976204444926934
GO:0042834peptidoglycan binding0.00976204444926934
GO:0008329pattern recognition receptor activity0.0113880460240682
GO:0009595detection of biotic stimulus0.0118091301495636
GO:0009581detection of external stimulus0.0379177019804636



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>


Cell Type
Ontology termp-valuen
epithelial cell1.14e-18254
endo-epithelial cell2.14e-1343
embryonic cell1.52e-10248
respiratory epithelial cell1.95e-0813
endodermal cell2.71e-0859
squamous epithelial cell1.61e-0762
Uber Anatomy
Ontology termp-valuen
anatomical space1.14e-10104
artery5.42e-0942
arterial blood vessel5.42e-0942
arterial system5.42e-0942
organism subdivision1.35e-08365
respiratory system5.58e-0872
systemic artery1.58e-0733
systemic arterial system1.58e-0733
epithelium1.72e-07309
cell layer2.46e-07312
blood vessel2.64e-0760
epithelial tube open at both ends2.64e-0760
blood vasculature2.64e-0760
vascular cord2.64e-0760
trunk7.66e-07216
orifice9.75e-0735
vasculature9.84e-0779
vascular system9.84e-0779
Disease
Ontology termp-valuen
squamous cell carcinoma6.39e-0714


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.