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|ontology_enrichment_disease=DOID:162!2.48e-11!235;DOID:0050687!1.12e-10!143;DOID:14566!4.92e-10!239;DOID:305!2.55e-09!106;DOID:0050686!6.44e-07!137
|ontology_enrichment_disease=DOID:162!2.48e-11!235;DOID:0050687!1.12e-10!143;DOID:14566!4.92e-10!239;DOID:305!2.55e-09!106;DOID:0050686!6.44e-07!137
|ontology_enrichment_uberon=UBERON:0002371!1.42e-12!80;UBERON:0002390!5.21e-12!102;UBERON:0003061!5.21e-12!102;UBERON:0001474!3.56e-11!86;UBERON:0002193!1.17e-09!112;UBERON:0002405!8.54e-09!115;UBERON:0004765!3.40e-07!101;UBERON:0001434!3.40e-07!101
|ontology_enrichment_uberon=UBERON:0002371!1.42e-12!80;UBERON:0002390!5.21e-12!102;UBERON:0003061!5.21e-12!102;UBERON:0001474!3.56e-11!86;UBERON:0002193!1.17e-09!112;UBERON:0002405!8.54e-09!115;UBERON:0004765!3.40e-07!101;UBERON:0001434!3.40e-07!101
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}}
}}

Revision as of 20:57, 8 August 2012


Full id: C898_CD14_Mast_Basophils_Natural_CD19_immature_CD8



Phase1 CAGE Peaks

Hg19::chr12:7052974..7052985,+p1@RNU7-1
p4@C12orf57
Hg19::chr14:35343199..35343210,-p@chr14:35343199..35343210
-
Hg19::chr17:56736656..56736674,-p1@ENST00000365207
Hg19::chr19:49382363..49382367,+p@chr19:49382363..49382367
+
Hg19::chr19:49383883..49383887,+p@chr19:49383883..49383887
+
Hg19::chr2:157189617..157189667,-p4@NR4A2
Hg19::chr2:224702739..224702758,+p@chr2:224702739..224702758
+
Hg19::chr8:81397820..81397836,+p2@ZBTB10
Hg19::chrX:139014487..139014499,+p@chrX:139014487..139014499
+


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:0042053regulation of dopamine metabolic process0.0100078001646933
GO:0042069regulation of catecholamine metabolic process0.0100078001646933
GO:0042417dopamine metabolic process0.0183457432124587
GO:0006584catecholamine metabolic process0.0266764682822135
GO:0018958phenol metabolic process0.0266764682822135
GO:0042133neurotransmitter metabolic process0.0266764682822135
GO:0006576biogenic amine metabolic process0.0450359718763971
GO:0001505regulation of neurotransmitter levels0.0450359718763971
GO:0006575amino acid derivative metabolic process0.0450359718763971
GO:0003707steroid hormone receptor activity0.0450359718763971
GO:0045944positive regulation of transcription from RNA polymerase II promoter0.0450359718763971
GO:0004879ligand-dependent nuclear receptor activity0.0450359718763971
GO:0006355regulation of transcription, DNA-dependent0.0450359718763971
GO:0006351transcription, DNA-dependent0.0450359718763971
GO:0032774RNA biosynthetic process0.0450359718763971
GO:0003677DNA binding0.0450359718763971
GO:0006725aromatic compound metabolic process0.0450359718763971
GO:0045449regulation of transcription0.0450359718763971
GO:0019219regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process0.0450359718763971
GO:0030182neuron differentiation0.0450359718763971
GO:0006350transcription0.0450359718763971
GO:0010468regulation of gene expression0.0450359718763971
GO:0045893positive regulation of transcription, DNA-dependent0.0450359718763971
GO:0031323regulation of cellular metabolic process0.0450359718763971
GO:0048699generation of neurons0.0450359718763971
GO:0019222regulation of metabolic process0.0450359718763971
GO:0016070RNA metabolic process0.0450359718763971
GO:0008270zinc ion binding0.0450359718763971
GO:0022008neurogenesis0.0450359718763971
GO:0045941positive regulation of transcription0.0451569455497714
GO:0045935positive regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process0.0451569455497714
GO:0007268synaptic transmission0.0451569455497714
GO:0019226transmission of nerve impulse0.049798892575355



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
leukocyte4.86e-34140
hematopoietic stem cell4.73e-30172
angioblastic mesenchymal cell4.73e-30172
hematopoietic cell3.66e-27182
hematopoietic oligopotent progenitor cell5.81e-27165
hematopoietic multipotent progenitor cell5.81e-27165
nongranular leukocyte6.18e-26119
hematopoietic lineage restricted progenitor cell6.87e-26124
CD14-positive, CD16-negative classical monocyte4.08e-2442
classical monocyte1.22e-2245
myeloid leukocyte1.97e-1576
lymphocyte9.57e-1453
common lymphoid progenitor9.57e-1453
myeloid cell1.73e-13112
common myeloid progenitor1.73e-13112
lymphoid lineage restricted progenitor cell1.97e-1352
granulocyte monocyte progenitor cell6.18e-1371
macrophage dendritic cell progenitor5.21e-1265
myeloid lineage restricted progenitor cell8.32e-1270
monopoietic cell4.40e-1163
monocyte4.40e-1163
monoblast4.40e-1163
promonocyte4.40e-1163
lymphocyte of B lineage1.00e-0824
pro-B cell1.00e-0824
B cell3.34e-0714
Uber Anatomy
Ontology termp-valuen
bone marrow1.42e-1280
hematopoietic system5.21e-12102
blood island5.21e-12102
bone element3.56e-1186
hemolymphoid system1.17e-09112
immune system8.54e-09115
skeletal element3.40e-07101
skeletal system3.40e-07101
Disease
Ontology termp-valuen
cancer2.48e-11235
cell type cancer1.12e-10143
disease of cellular proliferation4.92e-10239
carcinoma2.55e-09106
organ system cancer6.44e-07137


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.