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Coexpression cluster:C4047

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Full id: C4047_Neutrophils_CD14_Eosinophils_Peripheral_Basophils_Whole_CD14CD16



Phase1 CAGE Peaks

Hg19::chr20:46369826..46369840,+p@chr20:46369826..46369840
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Hg19::chr8:48266404..48266421,+p@chr8:48266404..48266421
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Hg19::chr8:48282265..48282276,+p@chr8:48282265..48282276
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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 monocyte1.20e-3545
CD14-positive, CD16-negative classical monocyte1.95e-3442
myeloid leukocyte6.87e-3076
macrophage dendritic cell progenitor3.16e-2665
monopoietic cell4.44e-2563
monocyte4.44e-2563
monoblast4.44e-2563
promonocyte4.44e-2563
granulocyte monocyte progenitor cell7.97e-2471
myeloid lineage restricted progenitor cell5.91e-2370
myeloid cell2.95e-20112
common myeloid progenitor2.95e-20112
leukocyte3.40e-17140
hematopoietic stem cell5.03e-13172
angioblastic mesenchymal cell5.03e-13172
nongranular leukocyte6.98e-12119
hematopoietic lineage restricted progenitor cell5.32e-11124
hematopoietic oligopotent progenitor cell6.17e-11165
hematopoietic multipotent progenitor cell6.17e-11165
hematopoietic cell8.98e-11182
intermediate monocyte3.88e-099
CD14-positive, CD16-positive monocyte3.88e-099
granulocyte1.02e-088
Uber Anatomy
Ontology termp-valuen
hemolymphoid system3.92e-25112
hematopoietic system8.57e-25102
blood island8.57e-25102
bone marrow1.30e-1980
immune system1.17e-17115
bone element1.11e-1686
skeletal element1.12e-13101
skeletal system1.12e-13101


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
CEBPB#105137.971147625824820.001974187055288560.011537891542657
NR3C1#290829.982015554115360.01278474365547170.0460533867703863



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.