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Coexpression cluster:C1075

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Full id: C1075_parietal_hippocampus_medulla_locus_caudate_thalamus_occipital



Phase1 CAGE Peaks

Hg19::chr2:115609753..115609755,+p@chr2:115609753..115609755
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Hg19::chr4:151171746..151171764,+p@chr4:151171746..151171764
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Hg19::chr4:151171800..151171822,+p@chr4:151171800..151171822
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Hg19::chr4:151171843..151171859,+p@chr4:151171843..151171859
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Hg19::chr4:151171861..151171883,+p@chr4:151171861..151171883
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Hg19::chr4:151171897..151171959,+p@chr4:151171897..151171959
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Hg19::chr4:151171963..151171987,+p@chr4:151171963..151171987
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Hg19::chr8:63161215..63161235,+p5@NKAIN3


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><br>


Uber Anatomy
Ontology termp-valuen
neural tube6.14e-6556
neural rod6.14e-6556
future spinal cord6.14e-6556
neural keel6.14e-6556
central nervous system4.76e-6181
regional part of nervous system1.31e-6053
regional part of brain1.31e-6053
brain4.35e-5968
future brain4.35e-5968
nervous system4.53e-5889
regional part of forebrain7.43e-5341
forebrain7.43e-5341
anterior neural tube7.43e-5341
future forebrain7.43e-5341
neurectoderm7.50e-4786
neural plate9.18e-4782
presumptive neural plate9.18e-4782
brain grey matter5.65e-4434
gray matter5.65e-4434
telencephalon8.22e-4434
regional part of telencephalon3.54e-4132
cerebral hemisphere3.84e-4132
pre-chordal neural plate1.44e-3761
ecto-epithelium8.55e-34104
cerebral cortex5.22e-3225
pallium5.22e-3225
adult organism5.77e-30114
regional part of cerebral cortex4.76e-2922
structure with developmental contribution from neural crest6.60e-27132
ectoderm-derived structure8.18e-27171
ectoderm8.18e-27171
presumptive ectoderm8.18e-27171
neocortex3.96e-2620
organ system subdivision2.02e-22223
basal ganglion2.30e-139
nuclear complex of neuraxis2.30e-139
aggregate regional part of brain2.30e-139
collection of basal ganglia2.30e-139
cerebral subcortex2.30e-139
neural nucleus3.01e-139
nucleus of brain3.01e-139
posterior neural tube4.17e-1315
chordal neural plate4.17e-1315
tube3.37e-11192
telencephalic nucleus1.49e-107
diencephalon3.05e-107
future diencephalon3.05e-107
brainstem1.06e-096
gyrus1.23e-096
segmental subdivision of hindbrain2.37e-0912
hindbrain2.37e-0912
presumptive hindbrain2.37e-0912
anatomical cluster3.81e-09373
limbic system1.20e-085
segmental subdivision of nervous system1.92e-0813
parietal lobe2.41e-085
temporal lobe3.87e-086
occipital lobe1.46e-075
organ part2.24e-07218
corpus striatum5.94e-074
striatum5.94e-074
ventral part of telencephalon5.94e-074
future corpus striatum5.94e-074
regional part of diencephalon7.07e-074


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.