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Coexpression cluster:C2169

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Full id: C2169_large_neuroectodermal_neuroblastoma_carcinoid_cerebellum_pineal_occipital



Phase1 CAGE Peaks

Hg19::chr11:83436366..83436383,-p27@DLG2
Hg19::chr15:69373184..69373197,+p2@LINC00277
Hg19::chr15:69373210..69373239,+p1@LINC00277
Hg19::chr5:132948193..132948209,-p1@FSTL4


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


GO IDGO nameFDR corrected p-value
GO:0004385guanylate kinase activity0.012949936385265
GO:0019201nucleotide kinase activity0.0223591816075259
GO:0016776phosphotransferase activity, phosphate group as acceptor0.0267512822343677
GO:0019205nucleobase, nucleoside, nucleotide kinase activity0.0267512822343677
GO:0045211postsynaptic membrane0.0315202427647414
GO:0044456synapse part0.0315202427647414



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>disease_data<br>


Uber Anatomy
Ontology termp-valuen
central nervous system2.80e-3582
regional part of nervous system2.35e-3494
nervous system2.35e-3494
neural tube3.72e-3357
neural rod3.72e-3357
future spinal cord3.72e-3357
neural keel3.72e-3357
regional part of brain1.93e-3059
adult organism5.02e-29115
brain1.78e-2869
future brain1.78e-2869
neurectoderm9.35e-2790
regional part of forebrain1.63e-2641
forebrain1.63e-2641
future forebrain1.63e-2641
anterior neural tube1.71e-2542
neural plate1.65e-2386
presumptive neural plate1.65e-2386
telencephalon5.81e-2134
gray matter8.84e-2134
brain grey matter8.84e-2134
regional part of telencephalon4.26e-2033
cerebral hemisphere7.91e-2032
neocortex2.22e-1820
pre-chordal neural plate8.74e-1861
ectoderm1.19e-17173
presumptive ectoderm1.19e-17173
regional part of cerebral cortex1.39e-1722
ectoderm-derived structure2.18e-15169
cerebral cortex1.89e-1425
pallium1.89e-1425
anterior region of body4.13e-14129
craniocervical region4.13e-14129
head1.44e-13123
anatomical cluster1.05e-11286
tube1.12e-10194
anatomical conduit7.02e-09241
organ part8.05e-09219
posterior neural tube9.70e-0915
chordal neural plate9.70e-0915
larynx2.46e-089
basal ganglion4.17e-089
nuclear complex of neuraxis4.17e-089
aggregate regional part of brain4.17e-089
collection of basal ganglia4.17e-089
cerebral subcortex4.17e-089
nucleus of brain6.49e-089
neural nucleus6.49e-089
temporal lobe1.14e-077
segmental subdivision of hindbrain4.22e-0712
hindbrain4.22e-0712
presumptive hindbrain4.22e-0712
respiratory primordium4.36e-0738
endoderm of foregut4.36e-0738
diencephalon4.43e-077
future diencephalon4.43e-077
gyrus6.14e-076
Disease
Ontology termp-valuen
cell type cancer2.94e-08143
germ cell and embryonal cancer4.32e-0822
germ cell cancer4.32e-0822
neuroectodermal tumor8.86e-0810


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)

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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.