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Coexpression cluster:C4245

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Full id: C4245_Smooth_extraskeletal_Chondrocyte_rhabdomyosarcoma_Multipotent_Fibroblast_spindle



Phase1 CAGE Peaks

Hg19::chr2:74780176..74780259,-p2@LOXL3
Hg19::chr2:74781033..74781046,-p4@LOXL3
Hg19::chr2:74781061..74781076,-p1@LOXL3


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
skeletal muscle tissue5.74e-1162
striated muscle tissue5.74e-1162
myotome5.74e-1162
muscle tissue3.71e-1064
musculature3.71e-1064
musculature of body3.71e-1064
dense mesenchyme tissue3.95e-1073
paraxial mesoderm1.01e-0972
presumptive paraxial mesoderm1.01e-0972
somite1.49e-0971
presomitic mesoderm1.49e-0971
presumptive segmental plate1.49e-0971
dermomyotome1.49e-0971
trunk paraxial mesoderm1.49e-0971
epithelial vesicle2.37e-0878
heart3.55e-0824
primitive heart tube3.55e-0824
primary heart field3.55e-0824
anterior lateral plate mesoderm3.55e-0824
heart tube3.55e-0824
heart primordium3.55e-0824
cardiac mesoderm3.55e-0824
cardiogenic plate3.55e-0824
heart rudiment3.55e-0824
connective tissue6.02e-08371
artery6.80e-0842
arterial blood vessel6.80e-0842
arterial system6.80e-0842
primary circulatory organ7.04e-0827
multilaminar epithelium2.00e-0783
splanchnic layer of lateral plate mesoderm2.19e-0783
systemic artery2.45e-0733
systemic arterial system2.45e-0733


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.