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Coexpression cluster:C1574

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Full id: C1574_salivary_maxillary_extraskeletal_cerebellum_gastric_breast_alveolar



Phase1 CAGE Peaks

Hg19::chr10:21462980..21462991,-p5@NEBL
Hg19::chr10:21462998..21463062,-p1@NEBL
Hg19::chr10:21463141..21463150,-p6@NEBL
Hg19::chr10:21463243..21463279,-p3@NEBL
Hg19::chr10:21463310..21463319,-p8@NEBL


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>disease_data<br>


Uber Anatomy
Ontology termp-valuen
adult organism2.03e-31115
neural tube3.77e-3157
neural rod3.77e-3157
future spinal cord3.77e-3157
neural keel3.77e-3157
neural plate2.69e-3086
presumptive neural plate2.69e-3086
neurectoderm9.95e-2990
regional part of brain9.45e-2859
central nervous system3.79e-2682
brain8.39e-2569
future brain8.39e-2569
anterior neural tube4.38e-2442
regional part of forebrain7.01e-2441
forebrain7.01e-2441
future forebrain7.01e-2441
regional part of nervous system1.91e-2394
nervous system1.91e-2394
anterior region of body5.03e-23129
craniocervical region5.03e-23129
head7.76e-23123
ectoderm-derived structure8.89e-22169
pre-chordal neural plate1.81e-2161
ectoderm3.87e-21173
presumptive ectoderm3.87e-21173
gray matter3.95e-2034
brain grey matter3.95e-2034
telencephalon4.81e-2034
organ1.34e-19511
regional part of telencephalon2.09e-1933
cerebral hemisphere7.39e-1932
organ part3.29e-15219
cerebral cortex1.78e-1425
pallium1.78e-1425
regional part of cerebral cortex6.53e-1422
embryo1.03e-13612
multi-tissue structure1.78e-13347
multi-cellular organism2.96e-13659
neocortex1.01e-1220
embryonic structure3.46e-12605
developing anatomical structure3.46e-12605
germ layer5.78e-12604
embryonic tissue5.78e-12604
presumptive structure5.78e-12604
epiblast (generic)5.78e-12604
organism subdivision8.57e-12365
anatomical system2.29e-10625
anatomical group3.73e-10626
posterior neural tube3.47e-0815
chordal neural plate3.47e-0815
anatomical conduit1.10e-07241
anatomical cluster1.28e-07286
cell layer2.48e-07312
epithelium2.78e-07309
nucleus of brain3.63e-079
neural nucleus3.63e-079
basal ganglion4.27e-079
nuclear complex of neuraxis4.27e-079
aggregate regional part of brain4.27e-079
collection of basal ganglia4.27e-079
cerebral subcortex4.27e-079
endoderm-derived structure6.20e-07169
endoderm6.20e-07169
presumptive endoderm6.20e-07169
organ segment7.36e-0797
segmental subdivision of nervous system8.80e-0713
Disease
Ontology termp-valuen
carcinoma9.55e-07106


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
CTBP2#1488450.17360027146253.18412825898083e-071.59495046158129e-05
CTCF#1066444.288205098460020.005152015588243280.0239185346737438
EGR1#195854.988179094810140.0003237398000590710.00330250644445881
FOS#235358.99795530889441.69470025615156e-050.000388312417841625
FOSL2#2355310.1581203627370.001881990703415430.0110896652603252



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.