Personal tools

Coexpression cluster:C2213: Difference between revisions

From FANTOM5_SSTAR

Jump to: navigation, search
No edit summary
No edit summary
Line 1: Line 1:
{{Coexpression_clusters
{{Coexpression_clusters
|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0137745948241495,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0709633364751775,0.0523708909774295,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0477549913674189,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0191274234626113,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0620188360244585,0,0,0.088882046313101,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.282995243595338,0,0.0195372020314829,0,0.320212368899808,0.306604262028884,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.229026659032916,0,0,0,0,0,0,0,0,0.0204283766509788,0,0,0,0,0,0,0.0364132912814638,0,0,0,0.0460773347506069,0,0,0,0,0,0,0,0,0,0,0,0.195648867418451,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0347526008100722,0,0,0,0,0,0,0,0.400028011608464,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0459554750499192,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0164670836994265,0.0171970732235436,0.0274610198110357,0,0,0,0,0,0,0,0,0,0,0,0,0.0111016828724432,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.076088887901912,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0874964475451495,0,0,0,0,0,0,0,0,0,0,0,0,0,0.260459128557442,0,0,0,0,0,0,0,0,0,0,0.0408925209217942,0,0,0.795586914817465,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.455588067486628,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.606504643797113,0,0,0.0261550693490902,0,0,0,0.467837892966146,0.339011687859264,0.82122036581487,0.408440860981295,0,0,0,0,0,0,0,0,0,0,0
|full_id=C2213_salivary_esophagus_tonsil_throat_tongue_submaxillary_parotid
|full_id=C2213_salivary_esophagus_tonsil_throat_tongue_submaxillary_parotid
|id=C2213
|id=C2213

Revision as of 14:54, 12 September 2012


Full id: C2213_salivary_esophagus_tonsil_throat_tongue_submaxillary_parotid



Phase1 CAGE Peaks

Hg19::chr12:52478546..52478552,+p@chr12:52478546..52478552
+
Hg19::chr19:51845384..51845409,-p1@VSIG10L
Hg19::chr20:31611186..31611191,+p10@BPIFB6
Hg19::chr22:30201087..30201093,-p5@ASCC2


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>

Uber Anatomy
Ontology termp-valuen
endoderm-derived structure8.99e-30169
endoderm8.99e-30169
presumptive endoderm8.99e-30169
digestive system1.11e-24155
digestive tract1.11e-24155
primitive gut1.11e-24155
mixed endoderm/mesoderm-derived structure8.45e-24130
subdivision of digestive tract1.05e-21129
endodermal part of digestive tract1.05e-21129
respiratory system4.15e-2072
foregut1.48e-1998
orifice2.34e-1735
endo-epithelium5.85e-1782
oral opening3.12e-1521
exocrine gland7.63e-1431
exocrine system7.63e-1431
gland7.06e-1359
gut epithelium9.81e-1254
trunk region element9.93e-12107
mouth1.35e-1128
stomodeum1.35e-1128
immaterial anatomical entity2.26e-11126
saliva-secreting gland4.10e-116
gland of oral region4.10e-116
gland of foregut4.10e-116
oral gland4.10e-116
oral cavity4.10e-116
surface structure4.80e-1195
mesenchyme6.01e-11238
entire embryonic mesenchyme6.01e-11238
respiratory tract1.18e-1053
gland of gut3.17e-1010
thoracic cavity element3.46e-0934
thoracic cavity3.46e-0934
subdivision of trunk4.69e-09113
organism subdivision7.04e-09365
thoracic segment organ8.53e-0935
epithelium of foregut-midgut junction2.34e-0825
anatomical boundary2.34e-0825
hepatobiliary system2.34e-0825
foregut-midgut junction2.34e-0825
septum transversum2.34e-0825
tracheobronchial tree3.10e-0814
lower respiratory tract3.10e-0814
multi-tissue structure1.41e-07347
anatomical space2.65e-07104
mixed ectoderm/mesoderm/endoderm-derived structure7.72e-0718
segment of respiratory tract8.37e-0746
subdivision of head9.00e-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.

Retrieved from "http://f5-webapp4.gsc.riken.jp/resource_browser/index.php?title=Coexpression_cluster:C2213&oldid=2136865"