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Coexpression cluster:C983

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Full id: C983_CD19_CD14_immature_Eosinophils_Natural_CD8_Neutrophils



Phase1 CAGE Peaks

Hg19::chr10:75173389..75173414,+p@chr10:75173389..75173414
+
Hg19::chr12:70133272..70133287,-p@chr12:70133272..70133287
-
Hg19::chr1:207495270..207495305,+p10@CD55
Hg19::chr5:100240379..100240385,+p@chr5:100240379..100240385
+
Hg19::chr6:14118396..14118415,+p@chr6:14118396..14118415
+
Hg19::chr6:14118443..14118457,+p@chr6:14118443..14118457
+
Hg19::chr6:14119773..14119779,+p@chr6:14119773..14119779
+
Hg19::chr6:14131244..14131255,+p@chr6:14131244..14131255
+


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
leukocyte5.01e-56140
hematopoietic stem cell5.20e-55172
angioblastic mesenchymal cell5.20e-55172
hematopoietic cell9.45e-52182
hematopoietic oligopotent progenitor cell1.16e-50165
hematopoietic multipotent progenitor cell1.16e-50165
hematopoietic lineage restricted progenitor cell4.21e-43124
nongranular leukocyte4.11e-42119
myeloid cell3.51e-33112
common myeloid progenitor3.51e-33112
myeloid leukocyte1.37e-3276
CD14-positive, CD16-negative classical monocyte4.07e-2942
granulocyte monocyte progenitor cell7.29e-2971
classical monocyte1.09e-2845
myeloid lineage restricted progenitor cell4.25e-2670
macrophage dendritic cell progenitor7.73e-2665
monopoietic cell2.03e-2463
monocyte2.03e-2463
monoblast2.03e-2463
promonocyte2.03e-2463
mesenchymal cell8.59e-16358
lymphocyte4.29e-1553
common lymphoid progenitor4.29e-1553
lymphoid lineage restricted progenitor cell8.51e-1552
connective tissue cell1.69e-14365
motile cell9.41e-12390
lymphocyte of B lineage1.48e-0924
pro-B cell1.48e-0924
multi fate stem cell1.00e-08430
stem cell4.89e-08444
somatic stem cell5.24e-08436
intermediate monocyte1.32e-079
CD14-positive, CD16-positive monocyte1.32e-079
granulocyte3.80e-078
dendritic cell8.14e-0710
Uber Anatomy
Ontology termp-valuen
hematopoietic system7.97e-31102
blood island7.97e-31102
hemolymphoid system3.67e-29112
bone marrow7.98e-2780
bone element2.94e-2486
immune system1.28e-19115
skeletal element1.43e-18101
skeletal system1.43e-18101
connective tissue2.95e-14375
lateral plate mesoderm2.76e-07216


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
E2F6#187663.762866798773040.001207680027997810.0081880611817751
EBF1#187944.45323342328450.007651884996748980.0315174008982279
NFKB1#479064.116047568145380.0007299856589784310.00581710455043861
POLR2A#543082.147453176558070.002210725788971910.0127301092062875
TRIM28#1015536.971446891973450.007100847201045050.0296073690845554



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.