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Coexpression cluster:C3196

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Full id: C3196_small_corpus_diencephalon_brain_chronic_CD133_CD34



Phase1 CAGE Peaks

Hg19::chr11:67415020..67415032,-p2@ACY3
Hg19::chr11:67415048..67415063,-p3@ACY3
Hg19::chr11:67415073..67415078,-p6@ACY3


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
lymphocyte of B lineage1.82e-0724
pro-B cell1.82e-0724
Uber Anatomy
Ontology termp-valuen
neural tube7.70e-4857
neural rod7.70e-4857
future spinal cord7.70e-4857
neural keel7.70e-4857
adult organism1.35e-42115
regional part of brain7.02e-3959
regional part of forebrain7.37e-3741
forebrain7.37e-3741
future forebrain7.37e-3741
central nervous system2.52e-3682
brain2.65e-3669
future brain2.65e-3669
anterior neural tube1.02e-3542
telencephalon1.52e-3534
gray matter4.53e-3534
brain grey matter4.53e-3534
regional part of telencephalon4.73e-3433
cerebral hemisphere1.31e-3232
neural plate1.11e-3086
presumptive neural plate1.11e-3086
regional part of nervous system2.01e-3094
nervous system2.01e-3094
neurectoderm1.29e-2890
regional part of cerebral cortex8.88e-2822
neocortex4.79e-2520
cerebral cortex1.00e-2325
pallium1.00e-2325
pre-chordal neural plate1.74e-2261
anterior region of body5.92e-20129
craniocervical region5.92e-20129
head1.08e-18123
nucleus of brain5.88e-139
neural nucleus5.88e-139
posterior neural tube7.15e-1315
chordal neural plate7.15e-1315
basal ganglion8.62e-139
nuclear complex of neuraxis8.62e-139
aggregate regional part of brain8.62e-139
collection of basal ganglia8.62e-139
cerebral subcortex8.62e-139
ectoderm-derived structure3.03e-12169
ectoderm1.26e-11173
presumptive ectoderm1.26e-11173
temporal lobe2.36e-117
telencephalic nucleus2.16e-107
brainstem2.34e-098
segmental subdivision of hindbrain3.74e-0912
hindbrain3.74e-0912
presumptive hindbrain3.74e-0912
segmental subdivision of nervous system2.75e-0813
limbic system2.78e-085
parietal lobe5.66e-085
tube1.00e-07194
occipital lobe1.80e-075


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.