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Coexpression cluster:C4369

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Full id: C4369_Eosinophils_CD14_Natural_Neutrophils_CD19_CD8_CD4



Phase1 CAGE Peaks

Hg19::chr4:130017338..130017347,+p4@C4orf33
Hg19::chr6:30181374..30181395,+p@chr6:30181374..30181395
+
Hg19::chr6:30181883..30181935,-p@chr6:30181883..30181935
-


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><br>


Cell Type
Ontology termp-valuen
leukocyte5.25e-50140
hematopoietic stem cell2.76e-40172
angioblastic mesenchymal cell2.76e-40172
nongranular leukocyte1.40e-39119
hematopoietic lineage restricted progenitor cell1.65e-39124
hematopoietic cell1.37e-37182
hematopoietic oligopotent progenitor cell2.50e-37165
hematopoietic multipotent progenitor cell2.50e-37165
classical monocyte2.71e-2445
myeloid leukocyte3.96e-2476
CD14-positive, CD16-negative classical monocyte1.04e-2342
lymphocyte4.63e-2153
common lymphoid progenitor4.63e-2153
lymphoid lineage restricted progenitor cell9.42e-2152
granulocyte monocyte progenitor cell5.74e-1971
myeloid lineage restricted progenitor cell1.10e-1770
macrophage dendritic cell progenitor4.18e-1765
myeloid cell9.30e-17112
common myeloid progenitor9.30e-17112
monopoietic cell1.99e-1663
monocyte1.99e-1663
monoblast1.99e-1663
promonocyte1.99e-1663
lymphocyte of B lineage1.29e-1124
pro-B cell1.29e-1124
mesenchymal cell8.09e-10358
B cell1.22e-0914
connective tissue cell2.16e-09365
mature alpha-beta T cell1.35e-0818
alpha-beta T cell1.35e-0818
immature T cell1.35e-0818
mature T cell1.35e-0818
immature alpha-beta T cell1.35e-0818
T cell2.11e-0825
pro-T cell2.11e-0825
intermediate monocyte8.79e-089
CD14-positive, CD16-positive monocyte8.79e-089
granulocyte2.31e-078
motile cell2.99e-07390
Uber Anatomy
Ontology termp-valuen
hematopoietic system1.16e-23102
blood island1.16e-23102
hemolymphoid system2.34e-22112
bone element7.97e-1886
bone marrow1.02e-1780
immune system6.67e-15115
skeletal element1.53e-13101
skeletal system1.53e-13101
connective tissue8.71e-09375


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
ELF1#199734.258097958807540.01295179875054610.0464070574210335
SIN3A#2594235.408884726815140.006318961977991520.0277708327730793
SMARCB1#6598212.16847718743830.008675002221921740.0330057762133073



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.