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|ontology_enrichment_disease=DOID:2531!3.32e-13!51;DOID:0060083!3.32e-13!51;DOID:8692!9.66e-13!31;DOID:1240!1.27e-12!39
|ontology_enrichment_disease=DOID:2531!3.32e-13!51;DOID:0060083!3.32e-13!51;DOID:8692!9.66e-13!31;DOID:1240!1.27e-12!39
|ontology_enrichment_uberon=UBERON:0002390!3.67e-42!102;UBERON:0003061!3.67e-42!102;UBERON:0002193!2.92e-38!112;UBERON:0002371!1.83e-30!80;UBERON:0007023!4.78e-27!115;UBERON:0001474!4.65e-26!86;UBERON:0002405!2.54e-22!115;UBERON:0004765!1.07e-18!101;UBERON:0001434!1.07e-18!101;UBERON:0000178!7.99e-10!15;UBERON:0000179!7.99e-10!15;UBERON:0000463!7.99e-10!15;UBERON:0003081!5.64e-08!216;UBERON:0002384!2.99e-07!375
|ontology_enrichment_uberon=UBERON:0002390!3.67e-42!102;UBERON:0003061!3.67e-42!102;UBERON:0002193!2.92e-38!112;UBERON:0002371!1.83e-30!80;UBERON:0007023!4.78e-27!115;UBERON:0001474!4.65e-26!86;UBERON:0002405!2.54e-22!115;UBERON:0004765!1.07e-18!101;UBERON:0001434!1.07e-18!101;UBERON:0000178!7.99e-10!15;UBERON:0000179!7.99e-10!15;UBERON:0000463!7.99e-10!15;UBERON:0003081!5.64e-08!216;UBERON:0002384!2.99e-07!375
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}}
}}

Revision as of 18:28, 8 August 2012


Full id: C2643_Eosinophils_acute_Neutrophils_CD14_Whole_Monocytederived_Macrophage



Phase1 CAGE Peaks

Hg19::chr22:37257002..37257013,+p4@NCF4
Hg19::chr22:37257015..37257065,+p1@NCF4
Hg19::chr22:37257072..37257091,+p2@NCF4
Hg19::chr22:37257098..37257115,+p3@NCF4


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 cell6.92e-75172
angioblastic mesenchymal cell6.92e-75172
hematopoietic oligopotent progenitor cell4.92e-72165
hematopoietic multipotent progenitor cell4.92e-72165
hematopoietic cell4.85e-70182
leukocyte2.23e-59140
myeloid cell9.71e-55112
common myeloid progenitor9.71e-55112
hematopoietic lineage restricted progenitor cell1.87e-50124
nongranular leukocyte2.87e-47119
myeloid leukocyte7.69e-4076
granulocyte monocyte progenitor cell1.19e-3571
myeloid lineage restricted progenitor cell1.96e-3470
macrophage dendritic cell progenitor2.52e-3265
monopoietic cell3.92e-3163
monocyte3.92e-3163
monoblast3.92e-3163
promonocyte3.92e-3163
CD14-positive, CD16-negative classical monocyte2.45e-2742
classical monocyte4.98e-2445
lymphocyte1.28e-1453
common lymphoid progenitor1.28e-1453
lymphoid lineage restricted progenitor cell2.27e-1452
lymphocyte of B lineage1.31e-1024
pro-B cell1.31e-1024
mesenchymal cell3.97e-09358
connective tissue cell4.20e-08365
granulocyte3.11e-078
B cell5.67e-0714
Uber Anatomy
Ontology termp-valuen
hematopoietic system3.67e-42102
blood island3.67e-42102
hemolymphoid system2.92e-38112
bone marrow1.83e-3080
adult organism4.78e-27115
bone element4.65e-2686
immune system2.54e-22115
skeletal element1.07e-18101
skeletal system1.07e-18101
blood7.99e-1015
haemolymphatic fluid7.99e-1015
organism substance7.99e-1015
lateral plate mesoderm5.64e-08216
connective tissue2.99e-07375
Disease
Ontology termp-valuen
hematologic cancer3.32e-1351
immune system cancer3.32e-1351
myeloid leukemia9.66e-1331
leukemia1.27e-1239


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.