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Coexpression cluster:C4849

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Full id: C4849_CD14_Mesothelial_Mast_acute_lymphoma_rhabdomyosarcoma_H9



Phase1 CAGE Peaks

Hg19::chrX:131157290..131157309,+p2@MST4
Hg19::chrX:131157322..131157339,+p1@MST4
Hg19::chrX:131157354..131157369,+p3@MST4


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
hematopoietic stem cell1.66e-53168
angioblastic mesenchymal cell1.66e-53168
hematopoietic oligopotent progenitor cell2.32e-50161
hematopoietic multipotent progenitor cell2.32e-50161
hematopoietic cell9.80e-50177
leukocyte4.69e-39136
nongranular leukocyte1.51e-33115
hematopoietic lineage restricted progenitor cell2.62e-33120
myeloid cell2.17e-31108
common myeloid progenitor2.17e-31108
myeloid leukocyte6.41e-2172
classical monocyte2.44e-1842
CD14-positive, CD16-negative classical monocyte2.44e-1842
granulocyte monocyte progenitor cell1.82e-1767
myeloid lineage restricted progenitor cell9.47e-1766
lymphocyte1.28e-1653
common lymphoid progenitor1.28e-1653
lymphoid lineage restricted progenitor cell1.37e-1652
defensive cell2.48e-1648
phagocyte2.48e-1648
nucleate cell4.26e-1655
monopoietic cell1.58e-1559
monocyte1.58e-1559
monoblast1.58e-1559
promonocyte1.58e-1559
macrophage dendritic cell progenitor2.89e-1561
lymphocyte of B lineage1.71e-0824
pro-B cell1.71e-0824
T cell5.07e-0825
pro-T cell5.07e-0825
Uber Anatomy
Ontology termp-valuen
hematopoietic system2.78e-2098
blood island2.78e-2098
hemolymphoid system4.08e-15108
bone marrow1.16e-1476
bone element3.41e-1482
skeletal element4.48e-1390
immune system1.66e-1193
skeletal system1.36e-10100
Disease
Ontology termp-valuen
hematologic cancer1.27e-1751
immune system cancer1.27e-1751
leukemia7.78e-1539
cancer2.26e-13235
myeloid leukemia4.91e-1331
disease of cellular proliferation5.48e-13239
organ system cancer4.41e-11137
carcinoma7.31e-08106


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
BRCA1#672320.18423064322380.0001215704860271640.001645929477598
CCNT2#90536.336201576962630.003930750035764890.0191448772552931
CHD2#1106310.34402283411690.0009033701102746880.00663388208036691
E2F1#186934.907389214879320.008460985347239390.0328313895106942
E2F6#187635.017155731697390.00791769806886330.0324828718471938
EGR1#195834.988179094810140.008056488137383440.032294909210877
ELF1#199734.258097958807540.01295179875054610.0465459863634522
HMGN3#932438.178547723350590.001827766942164210.0109367567132284
MYC#460935.22228187160940.007020843755740150.0296526165078351
TAL1#6886329.86861667744023.75103522793067e-050.000723728742231389



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.