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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002390!3.44e-16!102;UBERON:0003061!3.44e-16!102;UBERON:0002193!9.25e-15!112;UBERON:0002371!1.56e-14!80;UBERON:0002405!3.60e-13!115;UBERON:0001474!6.23e-13!86;UBERON:0004765!1.78e-12!101;UBERON:0001434!1.78e-12!101
|ontology_enrichment_uberon=UBERON:0002390!3.44e-16!102;UBERON:0003061!3.44e-16!102;UBERON:0002193!9.25e-15!112;UBERON:0002371!1.56e-14!80;UBERON:0002405!3.60e-13!115;UBERON:0001474!6.23e-13!86;UBERON:0004765!1.78e-12!101;UBERON:0001434!1.78e-12!101
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}}
}}

Revision as of 20:03, 8 August 2012


Full id: C4471_CD14_B_b_xeroderma_CD4_Preadipocyte_testicular



Phase1 CAGE Peaks

Hg19::chr5:142415993..142416004,+p@chr5:142415993..142416004
+
Hg19::chr5:158885630..158885652,+p@chr5:158885630..158885652
+
Hg19::chr8:101455606..101455618,+p@chr8:101455606..101455618
+


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
leukocyte7.07e-41140
hematopoietic lineage restricted progenitor cell1.15e-36124
nongranular leukocyte2.01e-35119
hematopoietic oligopotent progenitor cell1.01e-30165
hematopoietic multipotent progenitor cell1.01e-30165
hematopoietic stem cell7.24e-30172
angioblastic mesenchymal cell7.24e-30172
hematopoietic cell2.09e-28182
CD14-positive, CD16-negative classical monocyte5.91e-2342
classical monocyte6.52e-2145
lymphocyte2.06e-2053
common lymphoid progenitor2.06e-2053
lymphoid lineage restricted progenitor cell2.44e-1952
myeloid leukocyte2.22e-1876
granulocyte monocyte progenitor cell1.83e-1771
myeloid lineage restricted progenitor cell2.14e-1670
macrophage dendritic cell progenitor1.11e-1565
monopoietic cell5.53e-1563
monocyte5.53e-1563
monoblast5.53e-1563
promonocyte5.53e-1563
myeloid cell2.97e-12112
common myeloid progenitor2.97e-12112
T cell1.23e-0925
pro-T cell1.23e-0925
mature alpha-beta T cell1.59e-0818
alpha-beta T cell1.59e-0818
immature T cell1.59e-0818
mature T cell1.59e-0818
immature alpha-beta T cell1.59e-0818
lymphocyte of B lineage7.36e-0824
pro-B cell7.36e-0824
mesenchymal cell3.37e-07358
connective tissue cell8.97e-07365
Uber Anatomy
Ontology termp-valuen
hematopoietic system3.44e-16102
blood island3.44e-16102
hemolymphoid system9.25e-15112
bone marrow1.56e-1480
immune system3.60e-13115
bone element6.23e-1386
skeletal element1.78e-12101
skeletal system1.78e-12101


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.