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Coexpression cluster:C1114

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Full id: C1114_acute_myelodysplastic_biphenotypic_Whole_CD14_granulocyte_Reticulocytes



Phase1 CAGE Peaks

Hg19::chr10:31146746..31146755,-p14@ZNF438
Hg19::chr19:823786..823802,-p@chr19:823786..823802
-
Hg19::chr20:58296274..58296286,+p6@PHACTR3
Hg19::chr22:19230364..19230403,-p@chr22:19230364..19230403
-
Hg19::chr6:135516877..135516900,+p5@MYB
Hg19::chrX:102240328..102240378,+p@chrX:102240328..102240378
+
Hg19::chrX:77908950..77908963,+p@chrX:77908950..77908963
+


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


GO IDGO nameFDR corrected p-value
GO:0016363nuclear matrix0.000280759068628149
GO:0031981nuclear lumen0.0222802878898693
GO:0031974membrane-enclosed lumen0.0222802878898693
GO:0043233organelle lumen0.0222802878898693
GO:0004864protein phosphatase inhibitor activity0.0222802878898693
GO:0019212phosphatase inhibitor activity0.0222802878898693
GO:0044428nuclear part0.0222802878898693
GO:0005634nucleus0.0354264579927823
GO:0019888protein phosphatase regulator activity0.0361200255105227
GO:0019208phosphatase regulator activity0.0361200255105227



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
myeloid cell2.53e-56112
common myeloid progenitor2.53e-56112
hematopoietic stem cell5.27e-47172
angioblastic mesenchymal cell5.27e-47172
hematopoietic oligopotent progenitor cell1.94e-44165
hematopoietic multipotent progenitor cell1.94e-44165
hematopoietic cell5.81e-43182
myeloid leukocyte1.76e-3476
myeloid lineage restricted progenitor cell7.16e-3370
granulocyte monocyte progenitor cell1.64e-3071
monopoietic cell3.01e-2863
monocyte3.01e-2863
monoblast3.01e-2863
promonocyte3.01e-2863
macrophage dendritic cell progenitor9.60e-2765
leukocyte5.62e-25140
CD14-positive, CD16-negative classical monocyte1.06e-2242
classical monocyte3.88e-2245
hematopoietic lineage restricted progenitor cell9.76e-22124
nongranular leukocyte5.77e-21119
mesenchymal cell1.71e-12358
connective tissue cell6.24e-12365
motile cell2.02e-11390
Uber Anatomy
Ontology termp-valuen
hematopoietic system2.82e-37102
blood island2.82e-37102
hemolymphoid system3.67e-35112
bone marrow6.59e-2780
bone element9.44e-2786
skeletal element7.73e-23101
skeletal system7.73e-23101
immune system4.66e-21115
connective tissue8.81e-12375
blood3.02e-0815
haemolymphatic fluid3.02e-0815
organism substance3.02e-0815
lateral plate mesoderm7.31e-08216
musculoskeletal system2.13e-07167
Disease
Ontology termp-valuen
leukemia2.20e-2939
hematologic cancer8.15e-2751
immune system cancer8.15e-2751
myeloid leukemia5.62e-2531


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.