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Coexpression cluster:C1317

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Full id: C1317_Eosinophils_CD14CD16_CD14_Neutrophils_Basophils_Peripheral_CD4



Phase1 CAGE Peaks

Hg19::chr10:60026761..60026776,-p@chr10:60026761..60026776
-
Hg19::chr10:60026993..60027012,+p@chr10:60026993..60027012
+
Hg19::chr14:91976078..91976111,+p@chr14:91976078..91976111
+
Hg19::chr16:284853..284868,+p4@ITFG3
Hg19::chr6:166795389..166795393,+p@chr6:166795389..166795393
+
Hg19::chr7:27135705..27135768,+p2@HOTAIRM1


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
leukocyte9.33e-66136
hematopoietic lineage restricted progenitor cell4.13e-55120
classical monocyte4.97e-5542
CD14-positive, CD16-negative classical monocyte4.97e-5542
nongranular leukocyte1.10e-53115
hematopoietic stem cell2.06e-53168
angioblastic mesenchymal cell2.06e-53168
myeloid leukocyte1.52e-4972
hematopoietic cell3.42e-49177
hematopoietic oligopotent progenitor cell4.34e-49161
hematopoietic multipotent progenitor cell4.34e-49161
defensive cell3.55e-4648
phagocyte3.55e-4648
granulocyte monocyte progenitor cell2.46e-4467
macrophage dendritic cell progenitor8.96e-4061
myeloid lineage restricted progenitor cell3.27e-3966
monopoietic cell1.57e-3759
monocyte1.57e-3759
monoblast1.57e-3759
promonocyte1.57e-3759
myeloid cell2.20e-33108
common myeloid progenitor2.20e-33108
stuff accumulating cell5.75e-2087
intermediate monocyte4.19e-159
CD14-positive, CD16-positive monocyte4.19e-159
mesenchymal cell1.37e-14354
lymphoid lineage restricted progenitor cell4.13e-1452
connective tissue cell8.72e-14361
lymphocyte1.11e-1353
common lymphoid progenitor1.11e-1353
nucleate cell7.14e-1355
motile cell1.93e-11386
granulocyte5.90e-108
CD4-positive, alpha-beta T cell2.66e-096
stem cell4.20e-09441
mature alpha-beta T cell5.17e-0918
alpha-beta T cell5.17e-0918
immature T cell5.17e-0918
mature T cell5.17e-0918
immature alpha-beta T cell5.17e-0918
multi fate stem cell7.45e-09427
somatic stem cell2.17e-08433
B cell8.22e-0714
blood cell8.79e-0711
Uber Anatomy
Ontology termp-valuen
hematopoietic system3.58e-4198
blood island3.58e-4198
bone marrow1.81e-4076
bone element3.35e-3682
hemolymphoid system1.86e-35108
immune system6.55e-3493
skeletal element2.05e-3190
skeletal system1.55e-26100
connective tissue1.12e-13371
lateral plate mesoderm1.76e-12203
musculoskeletal system3.25e-11167


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#199753.548414965672950.003446837775721690.0175234527799541
POLR2A#543062.147453176558070.01019570676818780.0379862093023247
ZBTB7A#5134144.901272871917260.004079628118843750.0194820430317294



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.