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Coexpression cluster:C4296

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Full id: C4296_Monocytederived_CD14_Macrophage_ductal_Basophils_cervical_Urothelial



Phase1 CAGE Peaks

Hg19::chr3:152879985..152880038,+p1@RAP2B
Hg19::chr3:152881467..152881482,+p@chr3:152881467..152881482
+
Hg19::chr3:152881859..152881877,+p@chr3:152881859..152881877
+


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 cell1.03e-2748
phagocyte1.03e-2748
macrophage dendritic cell progenitor2.06e-2761
native cell3.41e-27722
monopoietic cell6.02e-2759
monocyte6.02e-2759
monoblast6.02e-2759
promonocyte6.02e-2759
myeloid lineage restricted progenitor cell7.65e-2666
granulocyte monocyte progenitor cell1.22e-2467
classical monocyte8.46e-2442
CD14-positive, CD16-negative classical monocyte8.46e-2442
animal cell9.35e-23679
eukaryotic cell9.35e-23679
myeloid leukocyte9.62e-2372
somatic cell6.40e-22588
hematopoietic lineage restricted progenitor cell4.05e-20120
nongranular leukocyte7.91e-20115
leukocyte8.28e-19136
myeloid cell1.07e-18108
common myeloid progenitor1.07e-18108
stuff accumulating cell1.49e-1887
hematopoietic stem cell1.27e-16168
angioblastic mesenchymal cell1.27e-16168
hematopoietic cell2.49e-16177
hematopoietic oligopotent progenitor cell2.59e-16161
hematopoietic multipotent progenitor cell2.59e-16161
epithelial cell3.70e-10253
Uber Anatomy
Ontology termp-valuen
hematopoietic system2.41e-2498
blood island2.41e-2498
hemolymphoid system3.50e-24108
bone marrow3.48e-2376
skeletal element1.96e-2190
bone element3.88e-2182
immune system5.08e-2193
skeletal system4.21e-17100
lateral plate mesoderm1.40e-16203
musculoskeletal system5.33e-10167
mesoderm4.85e-08315
mesoderm-derived structure4.85e-08315
presumptive mesoderm4.85e-08315


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.