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|ontology_enrichment_disease=DOID:2531!7.29e-10!51;DOID:0060083!7.29e-10!51;DOID:0060058!4.05e-08!10
|ontology_enrichment_disease=DOID:2531!7.29e-10!51;DOID:0060083!7.29e-10!51;DOID:0060058!4.05e-08!10
|ontology_enrichment_uberon=UBERON:0002390!6.71e-13!102;UBERON:0003061!6.71e-13!102;UBERON:0002193!5.82e-11!112;UBERON:0000178!5.28e-09!15;UBERON:0000179!5.28e-09!15;UBERON:0000463!5.28e-09!15
|ontology_enrichment_uberon=UBERON:0002390!6.71e-13!102;UBERON:0003061!6.71e-13!102;UBERON:0002193!5.82e-11!112;UBERON:0000178!5.28e-09!15;UBERON:0000179!5.28e-09!15;UBERON:0000463!5.28e-09!15
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}}
}}

Revision as of 19:22, 8 August 2012


Full id: C3683_embryonic_NK_Natural_Hodgkin_CD8_mesothelioma_CD4



Phase1 CAGE Peaks

Hg19::chr17:74610496..74610501,-p@chr17:74610496..74610501
-
Hg19::chr6:28852480..28852486,-p@chr6:28852480..28852486
-
Hg19::chr6:2937184..2937191,+p@chr6:2937184..2937191
+


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 cell2.00e-32172
angioblastic mesenchymal cell2.00e-32172
hematopoietic cell1.39e-31182
hematopoietic oligopotent progenitor cell1.03e-29165
hematopoietic multipotent progenitor cell1.03e-29165
leukocyte6.83e-27140
T cell1.54e-2425
pro-T cell1.54e-2425
hematopoietic lineage restricted progenitor cell4.35e-24124
nongranular leukocyte7.29e-24119
lymphocyte1.37e-2053
common lymphoid progenitor1.37e-2053
lymphoid lineage restricted progenitor cell3.37e-2052
mature alpha-beta T cell1.60e-1918
alpha-beta T cell1.60e-1918
immature T cell1.60e-1918
mature T cell1.60e-1918
immature alpha-beta T cell1.60e-1918
CD8-positive, alpha-beta T cell2.60e-1211
myeloid cell1.88e-11112
common myeloid progenitor1.88e-11112
classical monocyte4.23e-1045
CD14-positive, CD16-negative classical monocyte2.58e-0842
CD4-positive, alpha-beta T cell1.05e-076
myeloid leukocyte3.71e-0776
myeloid lineage restricted progenitor cell4.92e-0770
Uber Anatomy
Ontology termp-valuen
hematopoietic system6.71e-13102
blood island6.71e-13102
hemolymphoid system5.82e-11112
blood5.28e-0915
haemolymphatic fluid5.28e-0915
organism substance5.28e-0915
Disease
Ontology termp-valuen
hematologic cancer7.29e-1051
immune system cancer7.29e-1051
lymphoma4.05e-0810


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.