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Coexpression cluster:C2800


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Full id: C2800_pineal_teratocarcinoma_hepatoblastoma_optic_testicular_spinal_H9

Phase1 CAGE Peaks


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
Uber Anatomy
Ontology termp-valuen
central nervous system1.55e-3382
adult organism1.93e-32115
regional part of nervous system9.25e-3194
nervous system9.25e-3194
neural tube6.18e-3057
neural rod6.18e-3057
future spinal cord6.18e-3057
neural keel6.18e-3057
future brain1.09e-2669
regional part of brain1.75e-2659
presumptive ectoderm9.30e-24173
neural plate6.92e-2386
presumptive neural plate6.92e-2386
ectoderm-derived structure9.17e-23169
anterior neural tube1.41e-2242
regional part of forebrain3.92e-2241
future forebrain3.92e-2241
anterior region of body2.61e-19129
craniocervical region2.61e-19129
gray matter5.35e-1934
brain grey matter5.35e-1934
regional part of telencephalon2.27e-1833
cerebral hemisphere1.48e-1732
anatomical conduit3.10e-17241
pre-chordal neural plate2.77e-1661
cell layer2.86e-14312
cerebral cortex5.90e-1425
anatomical cluster1.37e-13286
regional part of cerebral cortex6.78e-1322
multi-tissue structure2.93e-12347
organism subdivision4.41e-12365
multi-cellular organism6.81e-12659
anatomical group1.94e-09626
organ part2.26e-09219
anatomical system2.77e-09625
embryonic structure4.06e-09605
developing anatomical structure4.06e-09605
germ layer7.57e-09604
embryonic tissue7.57e-09604
presumptive structure7.57e-09604
epiblast (generic)7.57e-09604
posterior neural tube1.82e-0815
chordal neural plate1.82e-0815
segmental subdivision of nervous system2.72e-0713

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



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.