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Coexpression cluster:C4299

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Full id: C4299_Dendritic_parietal_temporal_occipital_pituitary_gastrointestinal_cerebellum



Phase1 CAGE Peaks

Hg19::chr3:160473343..160473400,+p1@PPM1L
Hg19::chr3:160473403..160473426,+p2@PPM1L
Hg19::chr3:160473436..160473450,+p3@PPM1L


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
adult organism6.38e-43115
neural tube3.82e-2357
neural rod3.82e-2357
future spinal cord3.82e-2357
neural keel3.82e-2357
central nervous system1.59e-2182
regional part of nervous system1.16e-2094
nervous system1.16e-2094
anterior neural tube2.09e-1942
regional part of brain5.62e-1959
regional part of forebrain6.00e-1941
forebrain6.00e-1941
future forebrain6.00e-1941
neurectoderm1.94e-1890
neural plate3.92e-1886
presumptive neural plate3.92e-1886
brain7.84e-1869
future brain7.84e-1869
telencephalon5.56e-1634
gray matter6.76e-1634
brain grey matter6.76e-1634
hematopoietic system1.54e-15102
blood island1.54e-15102
regional part of telencephalon2.08e-1533
cerebral hemisphere2.26e-1532
pre-chordal neural plate1.81e-1461
regional part of cerebral cortex1.86e-1322
neocortex1.34e-1220
hemolymphoid system1.74e-12112
cerebral cortex2.36e-1225
pallium2.36e-1225
bone marrow5.66e-1280
bone element9.41e-1286
anterior region of body1.48e-11129
craniocervical region1.48e-11129
head2.37e-10123
ectoderm4.37e-10173
presumptive ectoderm4.37e-10173
ectoderm-derived structure1.03e-09169
skeletal element1.45e-08101
skeletal system1.45e-08101
immune system1.87e-07115


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.