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Coexpression cluster:C2161: Difference between revisions

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|full_id=C2161_CD14_Peripheral_Eosinophils_Basophils_Whole_acute_blood
|full_id=C2161_CD14_Peripheral_Eosinophils_Basophils_Whole_acute_blood
|id=C2161
|id=C2161
|ontology_enrichment_celltype=CL:0000766!3.72e-57!76;CL:0002194!2.22e-52!63;CL:0000576!2.22e-52!63;CL:0000040!2.22e-52!63;CL:0000559!2.22e-52!63;CL:0002009!3.37e-52!65;CL:0002057!5.49e-52!42;CL:0000860!1.88e-51!45;CL:0000557!4.20e-46!71;CL:0000839!3.52e-45!70;CL:0000738!1.01e-42!140;CL:0002087!9.28e-40!119;CL:0000763!9.77e-36!112;CL:0000049!9.77e-36!112;CL:0002031!3.80e-34!124;CL:0000037!5.17e-32!172;CL:0000566!5.17e-32!172;CL:0002032!7.32e-31!165;CL:0000837!7.32e-31!165;CL:0000988!8.85e-29!182;CL:0000094!1.68e-11!8;CL:0002393!2.56e-11!9;CL:0002397!2.56e-11!9;CL:0000081!8.95e-08!11;CL:0000134!2.59e-07!358;CL:0000235!6.98e-07!10;CL:0002320!9.11e-07!365
|ontology_enrichment_celltype=CL:0000473!1.00e-83!48;CL:0000234!1.00e-83!48;CL:0000766!4.64e-80!72;CL:0000860!9.67e-74!42;CL:0002057!9.67e-74!42;CL:0002194!1.84e-72!59;CL:0000576!1.84e-72!59;CL:0000040!1.84e-72!59;CL:0000559!1.84e-72!59;CL:0002009!2.43e-72!61;CL:0000557!1.74e-64!67;CL:0000839!3.57e-63!66;CL:0000738!1.17e-51!136;CL:0000763!1.64e-51!108;CL:0000049!1.64e-51!108;CL:0002087!8.23e-46!115;CL:0000037!1.23e-39!168;CL:0000566!1.23e-39!168;CL:0002031!1.90e-39!120;CL:0000325!3.04e-39!87;CL:0002032!1.20e-37!161;CL:0000837!1.20e-37!161;CL:0000988!1.33e-36!177;CL:0000094!1.15e-15!8;CL:0002393!1.70e-15!9;CL:0002397!1.70e-15!9;CL:0000235!5.94e-11!6;CL:0000081!6.62e-11!11;CL:0000134!5.56e-10!354;CL:0002320!1.90e-09!361;CL:0000219!1.34e-07!386;CL:0000767!8.11e-07!3
|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002390!2.28e-52!102;UBERON:0003061!2.28e-52!102;UBERON:0002193!1.67e-48!112;UBERON:0002371!1.08e-38!80;UBERON:0001474!1.24e-34!86;UBERON:0002405!3.88e-31!115;UBERON:0004765!8.83e-28!101;UBERON:0001434!8.83e-28!101;UBERON:0003081!5.62e-17!216;UBERON:0000178!1.04e-12!15;UBERON:0000179!1.04e-12!15;UBERON:0000463!1.04e-12!15;UBERON:0007023!7.29e-11!115;UBERON:0002204!1.92e-10!167
|ontology_enrichment_uberon=UBERON:0002390!8.87e-76!98;UBERON:0003061!8.87e-76!98;UBERON:0002193!2.57e-71!108;UBERON:0002371!5.15e-55!76;UBERON:0002405!7.16e-54!93;UBERON:0001474!7.52e-50!82;UBERON:0004765!4.91e-44!90;UBERON:0001434!4.44e-38!100;UBERON:0003081!8.59e-31!203;UBERON:0000178!4.52e-18!15;UBERON:0000179!4.52e-18!15;UBERON:0000463!4.52e-18!15;UBERON:0002204!8.42e-17!167;UBERON:0000926!6.74e-15!315;UBERON:0004120!6.74e-15!315;UBERON:0006603!6.74e-15!315;UBERON:0002384!1.00e-08!371
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}}
}}

Revision as of 12:08, 19 October 2012


Full id: C2161_CD14_Peripheral_Eosinophils_Basophils_Whole_acute_blood



Phase1 CAGE Peaks

Hg19::chr11:71846716..71846730,+p3@FOLR3
Hg19::chr11:71846731..71846747,+p5@FOLR3
Hg19::chr11:71846748..71846760,+p4@FOLR3
Hg19::chr11:71846764..71846779,+p2@FOLR3


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
defensive cell1.00e-8348
phagocyte1.00e-8348
myeloid leukocyte4.64e-8072
classical monocyte9.67e-7442
CD14-positive, CD16-negative classical monocyte9.67e-7442
monopoietic cell1.84e-7259
monocyte1.84e-7259
monoblast1.84e-7259
promonocyte1.84e-7259
macrophage dendritic cell progenitor2.43e-7261
granulocyte monocyte progenitor cell1.74e-6467
myeloid lineage restricted progenitor cell3.57e-6366
leukocyte1.17e-51136
myeloid cell1.64e-51108
common myeloid progenitor1.64e-51108
nongranular leukocyte8.23e-46115
hematopoietic stem cell1.23e-39168
angioblastic mesenchymal cell1.23e-39168
hematopoietic lineage restricted progenitor cell1.90e-39120
stuff accumulating cell3.04e-3987
hematopoietic oligopotent progenitor cell1.20e-37161
hematopoietic multipotent progenitor cell1.20e-37161
hematopoietic cell1.33e-36177
granulocyte1.15e-158
intermediate monocyte1.70e-159
CD14-positive, CD16-positive monocyte1.70e-159
macrophage5.94e-116
blood cell6.62e-1111
mesenchymal cell5.56e-10354
connective tissue cell1.90e-09361
motile cell1.34e-07386
basophil8.11e-073
Uber Anatomy
Ontology termp-valuen
hematopoietic system8.87e-7698
blood island8.87e-7698
hemolymphoid system2.57e-71108
bone marrow5.15e-5576
immune system7.16e-5493
bone element7.52e-5082
skeletal element4.91e-4490
skeletal system4.44e-38100
lateral plate mesoderm8.59e-31203
blood4.52e-1815
haemolymphatic fluid4.52e-1815
organism substance4.52e-1815
musculoskeletal system8.42e-17167
mesoderm6.74e-15315
mesoderm-derived structure6.74e-15315
presumptive mesoderm6.74e-15315
connective tissue1.00e-08371


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.

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