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|ontology_enrichment_disease=DOID:2531!4.87e-16!51;DOID:0060083!4.87e-16!51;DOID:1240!5.04e-14!39;DOID:8692!1.29e-11!31
|ontology_enrichment_disease=DOID:2531!4.87e-16!51;DOID:0060083!4.87e-16!51;DOID:1240!5.04e-14!39;DOID:8692!1.29e-11!31
|ontology_enrichment_uberon=UBERON:0002390!1.93e-16!102;UBERON:0003061!1.93e-16!102;UBERON:0002193!1.73e-15!112;UBERON:0001474!1.72e-10!86;UBERON:0002371!1.86e-10!80;UBERON:0002384!1.76e-08!375;UBERON:0004765!1.88e-07!101;UBERON:0001434!1.88e-07!101;UBERON:0002405!1.00e-06!115
|ontology_enrichment_uberon=UBERON:0002390!1.93e-16!102;UBERON:0003061!1.93e-16!102;UBERON:0002193!1.73e-15!112;UBERON:0001474!1.72e-10!86;UBERON:0002371!1.86e-10!80;UBERON:0002384!1.76e-08!375;UBERON:0004765!1.88e-07!101;UBERON:0001434!1.88e-07!101;UBERON:0002405!1.00e-06!115
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}}
}}

Revision as of 19:18, 8 August 2012


Full id: C3615_CD4_CD8_Natural_Mast_CD19_granulocyte_Basophils



Phase1 CAGE Peaks

Hg19::chr17:2207011..2207061,-p3@SMG6
Hg19::chr4:68411097..68411110,-p4@CENPC1
Hg19::chr4:68411152..68411174,-p2@CENPC1


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


GO IDGO nameFDR corrected p-value
GO:0044427chromosomal part0.00640195440246109
GO:0005694chromosome0.00640195440246109
GO:0005697telomerase holoenzyme complex0.00640195440246109
GO:0035303regulation of dephosphorylation0.00640195440246109
GO:0042162telomeric DNA binding0.0122082852453962
GO:0000184mRNA catabolic process, nonsense-mediated decay0.0122082852453962
GO:0006406mRNA export from nucleus0.0122082852453962
GO:0032200telomere organization and biogenesis0.0122082852453962
GO:0006402mRNA catabolic process0.0122082852453962
GO:0000723telomere maintenance0.0122082852453962
GO:0006405RNA export from nucleus0.0122082852453962
GO:0000781chromosome, telomeric region0.0122082852453962
GO:0000776kinetochore0.0122082852453962
GO:0051168nuclear export0.0156966496204888
GO:0006401RNA catabolic process0.0156966496204888
GO:0051174regulation of phosphorus metabolic process0.0204600198138956
GO:0019220regulation of phosphate metabolic process0.0204600198138956
GO:0000775chromosome, pericentric region0.0204600198138956
GO:0051028mRNA transport0.0204600198138956
GO:0050658RNA transport0.0204600198138956
GO:0051236establishment of RNA localization0.0204600198138956
GO:0050657nucleic acid transport0.0204600198138956
GO:0006403RNA localization0.0204600198138956
GO:0015931nucleobase, nucleoside, nucleotide and nucleic acid transport0.0221611014011255
GO:0043232intracellular non-membrane-bound organelle0.024713451545318
GO:0043228non-membrane-bound organelle0.024713451545318
GO:0030145manganese ion binding0.0265729373489249
GO:0004519endonuclease activity0.0265729373489249
GO:0006913nucleocytoplasmic transport0.0265729373489249
GO:0051169nuclear transport0.0265729373489249
GO:0003677DNA binding0.0298832650009259
GO:0032991macromolecular complex0.0355109874751774
GO:0004518nuclease activity0.0367296420604185
GO:0044446intracellular organelle part0.0367296420604185
GO:0044422organelle part0.0367296420604185
GO:0016311dephosphorylation0.0396731410028892
GO:0016071mRNA metabolic process0.0471050325502772



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 cell7.11e-55172
angioblastic mesenchymal cell7.11e-55172
hematopoietic cell2.63e-50182
hematopoietic oligopotent progenitor cell4.18e-50165
hematopoietic multipotent progenitor cell4.18e-50165
leukocyte5.29e-42140
hematopoietic lineage restricted progenitor cell1.30e-32124
nongranular leukocyte2.88e-32119
myeloid cell1.19e-25112
common myeloid progenitor1.19e-25112
lymphocyte6.62e-2353
common lymphoid progenitor6.62e-2353
lymphoid lineage restricted progenitor cell1.38e-2252
myeloid leukocyte1.54e-1476
CD14-positive, CD16-negative classical monocyte1.37e-1342
granulocyte monocyte progenitor cell7.10e-1371
T cell1.11e-1225
pro-T cell1.11e-1225
classical monocyte1.34e-1245
mature alpha-beta T cell1.97e-1118
alpha-beta T cell1.97e-1118
immature T cell1.97e-1118
mature T cell1.97e-1118
immature alpha-beta T cell1.97e-1118
myeloid lineage restricted progenitor cell4.32e-1170
macrophage dendritic cell progenitor3.71e-1065
monopoietic cell1.34e-0963
monocyte1.34e-0963
monoblast1.34e-0963
promonocyte1.34e-0963
lymphocyte of B lineage2.69e-0924
pro-B cell2.69e-0924
mesenchymal cell4.72e-09358
motile cell2.68e-08390
connective tissue cell9.14e-08365
CD8-positive, alpha-beta T cell2.57e-0711
B cell8.57e-0714
Uber Anatomy
Ontology termp-valuen
hematopoietic system1.93e-16102
blood island1.93e-16102
hemolymphoid system1.73e-15112
bone element1.72e-1086
bone marrow1.86e-1080
connective tissue1.76e-08375
skeletal element1.88e-07101
skeletal system1.88e-07101
immune system1.00e-06115
Disease
Ontology termp-valuen
hematologic cancer4.87e-1651
immune system cancer4.87e-1651
leukemia5.04e-1439
myeloid leukemia1.29e-1131


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.