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Coexpression cluster:C3457

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Full id: C3457_Mast_cord_myeloma_CD4_plasma_b_CD14



Phase1 CAGE Peaks

Hg19::chr14:75988771..75988826,+p1@BATF
Hg19::chr14:75988831..75988847,+p2@BATF
Hg19::chr14:76005793..76005797,+p1@AY927507


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 cell3.69e-67172
angioblastic mesenchymal cell3.69e-67172
hematopoietic oligopotent progenitor cell3.54e-65165
hematopoietic multipotent progenitor cell3.54e-65165
hematopoietic cell5.40e-64182
leukocyte6.74e-60140
hematopoietic lineage restricted progenitor cell1.16e-51124
nongranular leukocyte1.58e-49119
myeloid cell2.23e-36112
common myeloid progenitor2.23e-36112
myeloid leukocyte2.76e-2976
granulocyte monocyte progenitor cell3.23e-2671
lymphocyte2.08e-2553
common lymphoid progenitor2.08e-2553
myeloid lineage restricted progenitor cell5.96e-2570
lymphoid lineage restricted progenitor cell8.36e-2552
macrophage dendritic cell progenitor1.92e-2265
monopoietic cell5.70e-2263
monocyte5.70e-2263
monoblast5.70e-2263
promonocyte5.70e-2263
CD14-positive, CD16-negative classical monocyte1.10e-1742
classical monocyte7.36e-1645
T cell3.09e-1425
pro-T cell3.09e-1425
connective tissue cell5.31e-13365
mesenchymal cell7.77e-13358
mature alpha-beta T cell2.02e-1118
alpha-beta T cell2.02e-1118
immature T cell2.02e-1118
mature T cell2.02e-1118
immature alpha-beta T cell2.02e-1118
lymphocyte of B lineage2.07e-1024
pro-B cell2.07e-1024
motile cell2.47e-08390
CD8-positive, alpha-beta T cell1.43e-0711
Uber Anatomy
Ontology termp-valuen
hematopoietic system1.62e-36102
blood island1.62e-36102
hemolymphoid system1.78e-36112
bone marrow4.75e-2680
immune system7.60e-24115
bone element1.69e-2286
skeletal element2.10e-18101
skeletal system2.10e-18101
connective tissue1.65e-11375
lateral plate mesoderm3.26e-11216
adult organism6.06e-09115
blood4.99e-0815
haemolymphatic fluid4.99e-0815
organism substance4.99e-0815
Disease
Ontology termp-valuen
hematologic cancer1.67e-1351
immune system cancer1.67e-1351
leukemia9.61e-1039
myeloid leukemia2.08e-0731


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
BCL11A#53335218.91297006907140.003639406248379680.0183852156899741
BCLAF1#9774214.43509840674790.006201147435546130.0273786361031918
EBF1#187938.9064668465690.00141523283560980.00913846309621939
IRF4#3662214.60967512449610.006056122473217890.0268176966283826
MEF2A#4205212.4954872730960.008235029478029740.0324832210467934
NFKB1#479035.488063424193840.006049381815655430.0269133711371773
ZEB1#6935211.25895467836260.01010222676646330.0378065166898147



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.