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|ontology_enrichment_disease=DOID:162!9.78e-25!235;DOID:14566!3.02e-23!239;DOID:2531!6.42e-18!51;DOID:0060083!6.42e-18!51;DOID:0050686!1.31e-17!137;DOID:1240!1.13e-14!39;DOID:8692!8.95e-11!31;DOID:305!1.09e-10!106;DOID:0050687!1.57e-10!143
|ontology_enrichment_disease=DOID:162!9.78e-25!235;DOID:14566!3.02e-23!239;DOID:2531!6.42e-18!51;DOID:0060083!6.42e-18!51;DOID:0050686!1.31e-17!137;DOID:1240!1.13e-14!39;DOID:8692!8.95e-11!31;DOID:305!1.09e-10!106;DOID:0050687!1.57e-10!143
|ontology_enrichment_uberon=UBERON:0002384!2.35e-07!375
|ontology_enrichment_uberon=UBERON:0002384!2.35e-07!375
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}}
}}

Revision as of 19:35, 8 August 2012


Full id: C3956_Mast_cord_Hodgkin_granulocyte_rhabdomyosarcoma_lymphoma_acute



Phase1 CAGE Peaks

Hg19::chr1:24306768..24306779,-p3@SRSF10
Hg19::chr1:24306809..24306828,-p1@SRSF10
Hg19::chr1:24306835..24306868,-p2@SRSF10


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
hematopoietic stem cell4.53e-33172
angioblastic mesenchymal cell4.53e-33172
hematopoietic cell7.48e-30182
hematopoietic oligopotent progenitor cell8.87e-30165
hematopoietic multipotent progenitor cell8.87e-30165
lymphocyte7.81e-2453
common lymphoid progenitor7.81e-2453
lymphoid lineage restricted progenitor cell3.22e-2352
leukocyte1.80e-21140
hematopoietic lineage restricted progenitor cell4.00e-20124
nongranular leukocyte1.47e-19119
T cell1.35e-1125
pro-T cell1.35e-1125
lymphocyte of B lineage1.60e-1124
pro-B cell1.60e-1124
myeloid cell5.93e-10112
common myeloid progenitor5.93e-10112
motile cell1.47e-09390
mature alpha-beta T cell4.76e-0918
alpha-beta T cell4.76e-0918
immature T cell4.76e-0918
mature T cell4.76e-0918
immature alpha-beta T cell4.76e-0918
B cell2.79e-0814
mesenchymal cell4.13e-08358
Uber Anatomy
Ontology termp-valuen
connective tissue2.35e-07375
Disease
Ontology termp-valuen
cancer9.78e-25235
disease of cellular proliferation3.02e-23239
hematologic cancer6.42e-1851
immune system cancer6.42e-1851
organ system cancer1.31e-17137
leukemia1.13e-1439
myeloid leukemia8.95e-1131
carcinoma1.09e-10106
cell type cancer1.57e-10143


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.