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Coexpression cluster:C2824

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Full id: C2824_CD4_CD8_heart_skeletal_Natural_Basophils_Peripheral



Phase1 CAGE Peaks

Hg19::chr5:58335079..58335088,-p51@PDE4D
Hg19::chr5:58335205..58335231,-p5@PDE4D
Hg19::chr5:58335266..58335275,-p47@PDE4D
Hg19::chr5:58335281..58335327,-p3@PDE4D


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
classical monocyte4.59e-1242
CD14-positive, CD16-negative classical monocyte4.59e-1242
T cell2.44e-1125
pro-T cell2.44e-1125
leukocyte2.29e-10136
mature alpha-beta T cell3.12e-1018
alpha-beta T cell3.12e-1018
immature T cell3.12e-1018
mature T cell3.12e-1018
immature alpha-beta T cell3.12e-1018
defensive cell3.71e-0948
phagocyte3.71e-0948
nongranular leukocyte3.93e-09115
multi fate stem cell6.29e-09427
connective tissue cell6.45e-09361
mesenchymal cell1.22e-08354
hematopoietic stem cell2.49e-08168
angioblastic mesenchymal cell2.49e-08168
somatic stem cell5.29e-08433
hematopoietic cell7.82e-08177
stem cell1.35e-07441
myeloid leukocyte2.15e-0772
hematopoietic lineage restricted progenitor cell8.15e-07120
hematopoietic oligopotent progenitor cell9.02e-07161
hematopoietic multipotent progenitor cell9.02e-07161
Uber Anatomy
Ontology termp-valuen
hematopoietic system9.08e-1298
blood island9.08e-1298
hemolymphoid system8.38e-10108
musculoskeletal system3.79e-09167
connective tissue7.19e-09371


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


(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF#promotersEnrichmentp-valueq-value
FOS#235348.99795530889440.0001525147711168630.0019534572210785
FOSL2#2355416.93020060456171.2165416097647e-050.000304321890256804
MAX#414946.452555509007120.0005767613195645490.00486169293414059
MYC#460945.22228187160940.001344309395272740.0088944142497871
NR3C1#2908414.9730233311731.98868032687801e-050.000443984148479719
REST#597849.650028716128020.0001152825614219170.00157406137172749
STAT3#6774410.51946499715428.16377768286615e-050.00123406683662014
TCF7L2#693438.077632422353010.002978381685834620.0158687483362352
ZNF263#1012748.221841637010680.0002187871180958320.00249753064015855



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.