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|full_id=C1877_kidney_cervical_salivary_parotid_submaxillary_epididymis_thyroid
|full_id=C1877_kidney_cervical_salivary_parotid_submaxillary_epididymis_thyroid
|id=C1877
|id=C1877
|ontology_enrichment_celltype=CL:0002623!3.26e-08!3
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0001044!1.59e-16!6;UBERON:0003293!1.59e-16!6;UBERON:0003294!1.59e-16!6;UBERON:0010047!1.59e-16!6;UBERON:0000167!1.59e-16!6;UBERON:0007023!1.91e-16!115;UBERON:0000161!7.84e-14!35;UBERON:0004119!5.17e-13!169;UBERON:0000925!5.17e-13!169;UBERON:0006595!5.17e-13!169;UBERON:0003408!1.15e-12!10;UBERON:0001007!4.42e-12!155;UBERON:0001555!4.42e-12!155;UBERON:0007026!4.42e-12!155;UBERON:0004921!7.45e-12!129;UBERON:0004185!7.45e-12!129;UBERON:0000166!3.76e-11!21;UBERON:0000078!5.48e-11!18;UBERON:0001004!6.39e-10!72;UBERON:0006947!7.07e-10!3;UBERON:0004054!7.07e-10!3;UBERON:0000077!4.88e-09!130;UBERON:0005156!5.45e-08!59;UBERON:0000990!5.45e-08!59;UBERON:0000464!5.66e-08!104;UBERON:0000165!7.59e-08!28;UBERON:0000930!7.59e-08!28;UBERON:0004175!1.31e-07!25;UBERON:0005904!1.76e-07!4;UBERON:0001829!3.04e-07!2;UBERON:0000341!5.60e-07!2;UBERON:0002530!6.37e-07!59;UBERON:0003101!6.50e-07!22;UBERON:0000079!6.50e-07!22;UBERON:0003127!7.05e-07!2;UBERON:0003133!8.33e-07!48
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Revision as of 14:17, 21 May 2012


Full id: C1877_kidney_cervical_salivary_parotid_submaxillary_epididymis_thyroid



Phase1 CAGE Peaks

Hg19::chr21:31588318..31588321,-p5@CLDN8
Hg19::chr21:31588338..31588357,-p1@CLDN8
Hg19::chr21:31588358..31588363,-p4@CLDN8
Hg19::chr21:31588365..31588398,-p2@CLDN8
Hg19::chr21:31588401..31588433,-p3@CLDN8


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
acinar cell of salivary gland3.26e-083
Uber Anatomy
Ontology termp-valuen
saliva-secreting gland1.59e-166
gland of oral region1.59e-166
gland of foregut1.59e-166
oral gland1.59e-166
oral cavity1.59e-166
adult organism1.91e-16115
orifice7.84e-1435
endoderm-derived structure5.17e-13169
endoderm5.17e-13169
presumptive endoderm5.17e-13169
gland of gut1.15e-1210
digestive system4.42e-12155
digestive tract4.42e-12155
primitive gut4.42e-12155
subdivision of digestive tract7.45e-12129
endodermal part of digestive tract7.45e-12129
oral opening3.76e-1121
mixed ectoderm/mesoderm/endoderm-derived structure5.48e-1118
respiratory system6.39e-1072
male genital duct7.07e-103
internal male genitalia7.07e-103
mixed endoderm/mesoderm-derived structure4.88e-09130
reproductive structure5.45e-0859
reproductive system5.45e-0859
anatomical space5.66e-08104
mouth7.59e-0828
stomodeum7.59e-0828
internal genitalia1.31e-0725
duct of male reproductive system1.76e-074
major salivary gland3.04e-072
throat5.60e-072
gland6.37e-0759
male organism6.50e-0722
male reproductive system6.50e-0722
open tracheal system trachea7.05e-072
reproductive organ8.33e-0748


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.