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Coexpression cluster:C4066

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Full id: C4066_uterus_cervix_seminal_medulloblastoma_Skeletal_ductus_epitheloid



Phase1 CAGE Peaks

Hg19::chr21:17566504..17566519,+p15@LINC00478
Hg19::chr21:17566590..17566632,+p4@LINC00478
Hg19::chr21:17566643..17566671,+p9@LINC00478


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
non-terminally differentiated cell4.88e-07180
Uber Anatomy
Ontology termp-valuen
central nervous system4.13e-1482
adult organism2.82e-13115
multi-cellular organism4.39e-13659
head1.23e-12123
anterior region of body1.49e-12129
craniocervical region1.49e-12129
brain1.91e-1269
future brain1.91e-1269
regional part of brain1.96e-1259
neural tube9.38e-1257
neural rod9.38e-1257
future spinal cord9.38e-1257
neural keel9.38e-1257
regional part of nervous system1.26e-1194
nervous system1.26e-1194
anatomical system1.64e-11625
anatomical group1.78e-11626
neural plate4.68e-1186
presumptive neural plate4.68e-1186
tissue1.05e-10787
organ4.97e-10511
neurectoderm5.08e-1090
organism subdivision8.08e-10365
anterior neural tube2.39e-0942
ectoderm-derived structure4.27e-09169
regional part of forebrain4.53e-0941
forebrain4.53e-0941
future forebrain4.53e-0941
embryo5.75e-09612
embryonic structure7.89e-09605
developing anatomical structure7.89e-09605
multi-tissue structure1.24e-08347
ectoderm1.66e-08173
presumptive ectoderm1.66e-08173
germ layer1.71e-08604
embryonic tissue1.71e-08604
presumptive structure1.71e-08604
epiblast (generic)1.71e-08604
pre-chordal neural plate3.67e-0861
gray matter5.65e-0734
brain grey matter5.65e-0734
regional part of telencephalon5.71e-0733
telencephalon6.99e-0734


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.