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|full_id=C2362_Neutrophils_CD14_Whole_Eosinophils_Hepatocyte_Mesenchymal_blood
|full_id=C2362_Neutrophils_CD14_Whole_Eosinophils_Hepatocyte_Mesenchymal_blood
|id=C2362
|id=C2362
|ontology_enrichment_celltype=CL:0002371!6.20e-12!591;CL:0002194!1.14e-10!63;CL:0000576!1.14e-10!63;CL:0000040!1.14e-10!63;CL:0000559!1.14e-10!63;CL:0000144!1.58e-10!625;CL:0000183!4.82e-10!59;CL:0000766!1.84e-09!76;CL:0002009!2.50e-09!65;CL:0000680!1.26e-08!57;CL:0000056!1.26e-08!57;CL:0000355!1.26e-08!57;CL:0000187!2.00e-08!54;CL:0002057!3.16e-08!42;CL:0000222!3.50e-08!119;CL:0000048!5.13e-08!430;CL:0000192!5.78e-08!42;CL:0000514!5.78e-08!42;CL:0000860!1.42e-07!45;CL:0000723!1.72e-07!436;CL:0000839!2.25e-07!70;CL:0000055!3.27e-07!180;CL:0000034!4.52e-07!444;CL:0000393!4.60e-07!60;CL:0000211!4.60e-07!60;CL:0000548!7.03e-07!679;CL:0000004!7.03e-07!679;CL:0000255!7.03e-07!679
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000926!3.76e-18!448;UBERON:0004120!3.76e-18!448;UBERON:0006603!3.76e-18!448;UBERON:0003081!6.19e-16!216;UBERON:0002204!1.97e-15!167;UBERON:0005256!4.15e-13!143;UBERON:0002100!2.92e-12!216;UBERON:0000914!1.60e-09!83;UBERON:0002329!1.60e-09!83;UBERON:0003077!1.60e-09!83;UBERON:0003059!1.60e-09!83;UBERON:0007282!1.60e-09!83;UBERON:0009618!1.60e-09!83;UBERON:0007285!1.60e-09!83;UBERON:0002193!2.81e-09!112;UBERON:0004290!4.82e-09!70;UBERON:0002385!6.44e-09!63;UBERON:0001015!6.44e-09!63;UBERON:0000383!6.44e-09!63;UBERON:0002405!6.83e-09!115;UBERON:0000486!9.90e-09!82;UBERON:0002390!1.00e-08!102;UBERON:0003061!1.00e-08!102;UBERON:0001134!1.13e-08!61;UBERON:0002036!1.13e-08!61;UBERON:0003082!1.13e-08!61;UBERON:0000468!1.33e-08!659;UBERON:0001009!5.14e-08!113;UBERON:0009569!8.94e-08!113;UBERON:0004535!1.09e-07!110;UBERON:0003104!1.65e-07!238;UBERON:0009142!1.65e-07!238;UBERON:0003914!2.17e-07!118;UBERON:0002371!2.59e-07!80;UBERON:0000467!2.95e-07!625;UBERON:0000480!3.04e-07!626
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Revision as of 14:23, 21 May 2012


Full id: C2362_Neutrophils_CD14_Whole_Eosinophils_Hepatocyte_Mesenchymal_blood



Phase1 CAGE Peaks

Hg19::chr16:1993170..1993226,-p1@SEPX1
Hg19::chr16:1993230..1993248,-p2@SEPX1
Hg19::chr16:1993260..1993271,-p3@SEPX1
Hg19::chr19:1155118..1155189,-p@chr19:1155118..1155189
-


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
somatic cell6.20e-12591
monopoietic cell1.14e-1063
monocyte1.14e-1063
monoblast1.14e-1063
promonocyte1.14e-1063
contractile cell4.82e-1059
myeloid leukocyte1.84e-0976
macrophage dendritic cell progenitor2.50e-0965
muscle precursor cell1.26e-0857
myoblast1.26e-0857
multi-potent skeletal muscle stem cell1.26e-0857
muscle cell2.00e-0854
CD14-positive, CD16-negative classical monocyte3.16e-0842
mesodermal cell3.50e-08119
multi fate stem cell5.13e-08430
smooth muscle cell5.78e-0842
smooth muscle myoblast5.78e-0842
classical monocyte1.42e-0745
somatic stem cell1.72e-07436
myeloid lineage restricted progenitor cell2.25e-0770
non-terminally differentiated cell3.27e-07180
stem cell4.52e-07444
electrically responsive cell4.60e-0760
electrically active cell4.60e-0760
animal cell7.03e-07679
eukaryotic cell7.03e-07679
Uber Anatomy
Ontology termp-valuen
mesoderm3.76e-18448
mesoderm-derived structure3.76e-18448
presumptive mesoderm3.76e-18448
lateral plate mesoderm6.19e-16216
musculoskeletal system1.97e-15167
trunk mesenchyme4.15e-13143
trunk2.92e-12216
somite1.60e-0983
paraxial mesoderm1.60e-0983
presomitic mesoderm1.60e-0983
presumptive segmental plate1.60e-0983
trunk paraxial mesoderm1.60e-0983
presumptive paraxial mesoderm1.60e-0983
hemolymphoid system2.81e-09112
dermomyotome4.82e-0970
muscle tissue6.44e-0963
musculature6.44e-0963
musculature of body6.44e-0963
immune system6.83e-09115
multilaminar epithelium9.90e-0982
hematopoietic system1.00e-08102
blood island1.00e-08102
skeletal muscle tissue1.13e-0861
striated muscle tissue1.13e-0861
myotome1.13e-0861
multi-cellular organism1.33e-08659
circulatory system5.14e-08113
subdivision of trunk8.94e-08113
cardiovascular system1.09e-07110
mesenchyme1.65e-07238
entire embryonic mesenchyme1.65e-07238
epithelial tube2.17e-07118
bone marrow2.59e-0780
anatomical system2.95e-07625
anatomical group3.04e-07626


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.