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Coexpression cluster:C4522

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Full id: C4522_non_parietal_occipital_thymus_temporal_duodenum_Hodgkin



Phase1 CAGE Peaks

Hg19::chr5:81046859..81046902,-p1@SSBP2
Hg19::chr5:81046904..81046921,-p2@SSBP2
Hg19::chr5:81046922..81046933,-p3@SSBP2


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
lymphocyte4.75e-0953
common lymphoid progenitor4.75e-0953
lymphoid lineage restricted progenitor cell1.19e-0852
lymphocyte of B lineage1.61e-0824
pro-B cell1.61e-0824
Uber Anatomy
Ontology termp-valuen
adult organism1.67e-30115
neural tube5.03e-2457
neural rod5.03e-2457
future spinal cord5.03e-2457
neural keel5.03e-2457
central nervous system1.24e-2382
brain2.84e-2269
future brain2.84e-2269
regional part of brain1.01e-2159
regional part of nervous system6.59e-2094
nervous system6.59e-2094
anterior neural tube3.76e-1942
regional part of forebrain1.13e-1841
forebrain1.13e-1841
future forebrain1.13e-1841
gray matter1.99e-1634
brain grey matter1.99e-1634
telencephalon2.39e-1634
neural plate6.78e-1686
presumptive neural plate6.78e-1686
regional part of telencephalon7.47e-1633
cerebral hemisphere1.78e-1532
neurectoderm2.30e-1590
anterior region of body6.10e-14129
craniocervical region6.10e-14129
pre-chordal neural plate3.50e-1361
head2.45e-12123
cerebral cortex3.96e-1225
pallium3.96e-1225
regional part of cerebral cortex5.18e-1222
neocortex2.98e-1120
ectoderm-derived structure1.92e-10169
ectoderm2.64e-10173
presumptive ectoderm2.64e-10173


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.