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Coexpression cluster:C2098

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Full id: C2098_lymphoma_CD19_b_CD34_Burkitt_diffuse_spleen



Phase1 CAGE Peaks

Hg19::chr11:118754625..118754644,+p2@CXCR5
Hg19::chr11:118764607..118764629,+p@chr11:118764607..118764629
+
Hg19::chr20:56258008..56258012,+p@chr20:56258008..56258012
+
Hg19::chr3:197517823..197517825,+p13@LRCH3


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>disease_data<br>


Cell Type
Ontology termp-valuen
lymphocyte of B lineage2.18e-4324
pro-B cell2.18e-4324
lymphocyte6.58e-3553
common lymphoid progenitor6.58e-3553
nucleate cell1.93e-3355
lymphoid lineage restricted progenitor cell2.57e-3252
nongranular leukocyte3.95e-25115
B cell9.14e-2514
leukocyte1.09e-23136
hematopoietic lineage restricted progenitor cell2.09e-18120
hematopoietic stem cell7.77e-18168
angioblastic mesenchymal cell7.77e-18168
hematopoietic cell1.43e-16177
hematopoietic oligopotent progenitor cell1.23e-14161
hematopoietic multipotent progenitor cell1.23e-14161
mature B cell7.73e-102
pre-B-II cell7.73e-102
transitional stage B cell7.73e-102
small pre-B-II cell7.73e-102
immature B cell7.73e-102
CD4-positive, alpha-beta T cell2.60e-076
plasmacytoid dendritic cell3.97e-073
single nucleate cell7.80e-073
mononuclear cell7.80e-073
precursor B cell8.03e-073
Uber Anatomy
Ontology termp-valuen
spleen6.98e-143
gastrointestinal system mesentery6.98e-143
stomach region6.98e-143
mesentery6.98e-143
gastrointestinal system serosa6.98e-143
mesentery of stomach6.98e-143
gut mesentery6.98e-143
dorsal mesentery6.98e-143
dorsal mesogastrium6.98e-143
peritoneal cavity6.98e-143
spleen primordium6.98e-143
Disease
Ontology termp-valuen
lymphoma3.94e-1110


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.