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Coexpression cluster:C3421

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Full id: C3421_Neural_caudate_medulloblastoma_Neurons_small_Astrocyte_putamen



Phase1 CAGE Peaks

Hg19::chr14:29236997..29237007,+p11@FOXG1
Hg19::chr14:29237009..29237049,+p4@FOXG1
Hg19::chr14:29241984..29242013,+p1@C14orf23


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
central nervous system1.33e-5581
cerebral hemisphere1.14e-5332
telencephalon3.09e-5334
nervous system3.74e-5289
regional part of forebrain3.75e-5141
forebrain3.75e-5141
anterior neural tube3.75e-5141
future forebrain3.75e-5141
regional part of telencephalon5.08e-5032
brain5.80e-5068
future brain5.80e-5068
pre-chordal neural plate3.66e-4861
brain grey matter1.53e-4634
gray matter1.53e-4634
regional part of nervous system1.02e-4353
regional part of brain1.02e-4353
cerebral cortex6.81e-4225
pallium6.81e-4225
neural plate5.06e-4182
presumptive neural plate5.06e-4182
neural tube9.99e-4156
neural rod9.99e-4156
future spinal cord9.99e-4156
neural keel9.99e-4156
neurectoderm2.06e-3886
regional part of cerebral cortex6.10e-3722
neocortex3.01e-3320
ectoderm-derived structure1.45e-32171
ectoderm1.45e-32171
presumptive ectoderm1.45e-32171
ecto-epithelium3.57e-29104
structure with developmental contribution from neural crest2.08e-24132
organ system subdivision2.63e-24223
adult organism2.62e-18114
anatomical cluster1.76e-17373
organ part9.21e-14218
basal ganglion4.78e-139
nuclear complex of neuraxis4.78e-139
aggregate regional part of brain4.78e-139
collection of basal ganglia4.78e-139
cerebral subcortex4.78e-139
gyrus1.42e-116
tube1.85e-11192
limbic system1.19e-105
temporal lobe2.48e-106
occipital lobe7.30e-105
parietal lobe1.03e-095
telencephalic nucleus1.31e-097
epithelium2.26e-09306
cell layer4.01e-09309
multi-tissue structure6.21e-09342
embryo8.75e-09592
germ layer1.04e-08560
germ layer / neural crest1.04e-08560
embryonic tissue1.04e-08560
presumptive structure1.04e-08560
germ layer / neural crest derived structure1.04e-08560
epiblast (generic)1.04e-08560
embryonic structure1.78e-08564
developing anatomical structure1.80e-08581
corpus striatum2.02e-084
striatum2.02e-084
ventral part of telencephalon2.02e-084
future corpus striatum2.02e-084
organ1.48e-07503
atypical epithelium2.57e-074
pigment epithelium of eye2.89e-0711
neural nucleus2.96e-079
nucleus of brain2.96e-079


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.