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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
defensive cell1.48e-5648
phagocyte1.48e-5648
classical monocyte5.76e-5442
CD14-positive, CD16-negative classical monocyte5.76e-5442
myeloid lineage restricted progenitor cell3.19e-5066
granulocyte monocyte progenitor cell3.23e-4967
myeloid leukocyte7.93e-4972
monopoietic cell2.27e-4859
monocyte2.27e-4859
monoblast2.27e-4859
promonocyte2.27e-4859
macrophage dendritic cell progenitor2.88e-4661
stuff accumulating cell4.42e-3187
myeloid cell6.65e-28108
common myeloid progenitor6.65e-28108
mesenchymal cell1.49e-20354
hematopoietic lineage restricted progenitor cell3.50e-20120
connective tissue cell1.33e-19361
leukocyte9.54e-19136
motile cell1.58e-18386
nongranular leukocyte2.39e-18115
multi fate stem cell7.70e-17427
somatic stem cell3.40e-16433
stem cell2.30e-15441
hematopoietic oligopotent progenitor cell2.29e-13161
hematopoietic multipotent progenitor cell2.29e-13161
hematopoietic stem cell7.73e-13168
angioblastic mesenchymal cell7.73e-13168
hematopoietic cell2.02e-11177
animal cell7.29e-11679
eukaryotic cell7.29e-11679
mesothelial cell6.78e-1019
intermediate monocyte7.86e-099
CD14-positive, CD16-positive monocyte7.86e-099
somatic cell1.09e-08588
native cell4.18e-08722
Uber Anatomy
Ontology termp-valuen
bone marrow1.24e-4576
bone element5.32e-4182
skeletal element5.42e-3990
skeletal system4.16e-36100
immune system1.27e-3593
hematopoietic system8.20e-3398
blood island8.20e-3398
hemolymphoid system1.81e-29108
musculoskeletal system3.63e-20167
connective tissue2.62e-18371
lateral plate mesoderm2.66e-12203
mesoderm2.06e-11315
mesoderm-derived structure2.06e-11315
presumptive mesoderm2.06e-11315
right ovary1.50e-075
Disease
Ontology termp-valuen
ovarian cancer4.05e-1114


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.