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Coexpression cluster:C3122

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Full id: C3122_Mast_Chondrocyte_bronchioalveolar_renal_retina_Hepatocyte_Osteoblast



Phase1 CAGE Peaks

Hg19::chr11:1771789..1771796,-p11@IFITM10
Hg19::chr11:1771797..1771832,-p1@IFITM10
Hg19::chr11:1771837..1771848,-p5@IFITM10


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><br>uberon_data<br><br>


Uber Anatomy
Ontology termp-valuen
adult organism4.20e-37115
neural plate9.82e-2286
presumptive neural plate9.82e-2286
neural tube3.89e-2057
neural rod3.89e-2057
future spinal cord3.89e-2057
neural keel3.89e-2057
neurectoderm1.11e-1990
regional part of brain2.37e-1759
brain2.57e-1669
future brain2.57e-1669
anterior region of body5.28e-16129
craniocervical region5.28e-16129
head9.79e-16123
ectoderm-derived structure2.25e-15169
central nervous system5.31e-1582
regional part of nervous system8.43e-1594
nervous system8.43e-1594
organism subdivision2.48e-14365
ectoderm2.52e-14173
presumptive ectoderm2.52e-14173
regional part of forebrain3.29e-1341
forebrain3.29e-1341
future forebrain3.29e-1341
pre-chordal neural plate5.18e-1361
anterior neural tube1.32e-1242
multi-tissue structure2.25e-11347
gray matter3.01e-1134
brain grey matter3.01e-1134
telencephalon3.97e-1134
regional part of telencephalon1.10e-1033
organ1.84e-10511
cerebral hemisphere8.91e-1032
multi-cellular organism1.61e-09659
posterior neural tube2.86e-0915
chordal neural plate2.86e-0915
embryo2.05e-08612
embryonic structure4.24e-08605
developing anatomical structure4.24e-08605
germ layer7.34e-08604
embryonic tissue7.34e-08604
presumptive structure7.34e-08604
epiblast (generic)7.34e-08604
segmental subdivision of nervous system7.89e-0813
segmental subdivision of hindbrain2.18e-0712
hindbrain2.18e-0712
presumptive hindbrain2.18e-0712
regional part of cerebral cortex7.60e-0722
epithelium7.88e-07309
cerebral cortex9.25e-0725
pallium9.25e-0725


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


(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF#promotersEnrichmentp-valueq-value
GATA1#2623313.56030814380040.0004009615963782630.00386881265374625



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.