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Coexpression cluster:C4640

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Full id: C4640_CD14CD16_CD19_Neutrophils_Burkitt_migratory_Eosinophils_Dendritic



Phase1 CAGE Peaks

Hg19::chr7:106505874..106505906,+p2@PIK3CG
Hg19::chr7:106505912..106505931,+p5@PIK3CG
Hg19::chr7:106505940..106505955,+p7@PIK3CG


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 cell8.35e-81172
angioblastic mesenchymal cell8.35e-81172
hematopoietic cell3.36e-76182
hematopoietic oligopotent progenitor cell1.94e-74165
hematopoietic multipotent progenitor cell1.94e-74165
leukocyte1.07e-72140
hematopoietic lineage restricted progenitor cell3.50e-54124
nongranular leukocyte5.05e-54119
myeloid cell3.61e-46112
common myeloid progenitor3.61e-46112
myeloid leukocyte1.42e-3676
granulocyte monocyte progenitor cell1.02e-3171
myeloid lineage restricted progenitor cell3.63e-2870
CD14-positive, CD16-negative classical monocyte8.26e-2842
macrophage dendritic cell progenitor1.70e-2765
monopoietic cell2.73e-2663
monocyte2.73e-2663
monoblast2.73e-2663
promonocyte2.73e-2663
classical monocyte9.58e-2545
lymphocyte9.39e-2453
common lymphoid progenitor9.39e-2453
lymphoid lineage restricted progenitor cell5.66e-2352
lymphocyte of B lineage2.19e-1824
pro-B cell2.19e-1824
B cell1.87e-1314
mesenchymal cell3.81e-12358
connective tissue cell4.05e-11365
dendritic cell3.70e-1010
granulocyte1.33e-088
intermediate monocyte2.13e-089
CD14-positive, CD16-positive monocyte2.13e-089
conventional dendritic cell2.28e-088
motile cell1.04e-07390
Uber Anatomy
Ontology termp-valuen
hematopoietic system2.46e-40102
blood island2.46e-40102
hemolymphoid system1.35e-39112
bone marrow5.16e-2880
bone element2.68e-2486
immune system1.47e-22115
skeletal element3.74e-17101
skeletal system3.74e-17101
lateral plate mesoderm1.59e-12216
connective tissue2.30e-10375
adult organism3.37e-09115
blood3.95e-0915
haemolymphatic fluid3.95e-0915
organism substance3.95e-0915
Disease
Ontology termp-valuen
hematologic cancer4.06e-1351
immune system cancer4.06e-1351
leukemia1.71e-0939
myeloid leukemia4.22e-0831


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
BATF#10538324.35780179230366.91705216281876e-050.0011022429216244
ELF1#199734.258097958807540.01295179875054610.0464788135143553
GATA2#2624312.7449317335540.0004829527704283790.00438906233821524
NFKB1#479035.488063424193840.006049381815655430.0270806424108546
SPI1#668838.204323508522730.001810593189410520.0109405543918563



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.