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Coexpression cluster:C4791

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Full id: C4791_schwannoma_CD14_mesenchymal_Mast_Fibroblast_Mesothelial_Macrophage



Phase1 CAGE Peaks

Hg19::chr9:115950730..115950743,+p@chr9:115950730..115950743
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Hg19::chr9:115950749..115950771,+p@chr9:115950749..115950771
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Hg19::chr9:115950788..115950806,+p@chr9:115950788..115950806
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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>disease_data<br>


Cell Type
Ontology termp-valuen
CD14-positive, CD16-negative classical monocyte2.13e-3542
granulocyte monocyte progenitor cell8.09e-3471
myeloid lineage restricted progenitor cell1.57e-3370
myeloid leukocyte5.06e-3376
classical monocyte1.10e-3145
monopoietic cell1.14e-3163
monocyte1.14e-3163
monoblast1.14e-3163
promonocyte1.14e-3163
macrophage dendritic cell progenitor4.29e-3165
myeloid cell3.01e-19112
common myeloid progenitor3.01e-19112
multi fate stem cell3.30e-17430
somatic stem cell1.41e-16436
mesenchymal cell1.56e-16358
connective tissue cell2.59e-15365
stem cell2.70e-15444
motile cell3.16e-14390
hematopoietic lineage restricted progenitor cell1.44e-11124
leukocyte1.33e-10140
nongranular leukocyte1.27e-09119
somatic cell9.99e-09591
animal cell1.29e-08679
eukaryotic cell1.29e-08679
hematopoietic oligopotent progenitor cell1.81e-07165
hematopoietic multipotent progenitor cell1.81e-07165
intermediate monocyte7.03e-079
CD14-positive, CD16-positive monocyte7.03e-079
hematopoietic stem cell8.36e-07172
angioblastic mesenchymal cell8.36e-07172
Uber Anatomy
Ontology termp-valuen
bone marrow7.06e-3380
bone element1.64e-2986
skeletal element3.28e-28101
skeletal system3.28e-28101
hematopoietic system5.69e-25102
blood island5.69e-25102
musculoskeletal system2.87e-23167
hemolymphoid system4.09e-22112
immune system2.57e-21115
connective tissue4.22e-16375
lateral plate mesoderm5.57e-10216
mesoderm3.18e-09448
mesoderm-derived structure3.18e-09448
presumptive mesoderm3.18e-09448
Disease
Ontology termp-valuen
ovarian cancer2.00e-0914


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#235338.99795530889440.001372499272417130.00902432960916473
GATA2#2624312.7449317335540.0004829527704283790.00439288489729747
JUN#3725312.51282919233630.0005103313992726250.00446573112766097
JUND#372736.994663941871030.002921845042734990.0157776006627475
STAT3#6774310.51946499715420.0008589184530415310.00646100434436794



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.