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Coexpression cluster:C3831

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Full id: C3831_granulocyte_CD14_CD14CD16_Neutrophils_acute_Eosinophils_immature



Phase1 CAGE Peaks

Hg19::chr19:7414040..7414081,+p@chr19:7414040..7414081
+
Hg19::chr19:7414085..7414096,+p@chr19:7414085..7414096
+
Hg19::chr7:50344289..50344323,+p1@IKZF1


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 cell8.59e-88168
angioblastic mesenchymal cell8.59e-88168
hematopoietic oligopotent progenitor cell5.02e-81161
hematopoietic multipotent progenitor cell5.02e-81161
hematopoietic cell1.04e-80177
leukocyte3.51e-70136
nongranular leukocyte7.09e-68115
hematopoietic lineage restricted progenitor cell2.88e-59120
myeloid cell2.67e-49108
common myeloid progenitor2.67e-49108
myeloid leukocyte1.91e-3972
monopoietic cell4.84e-3659
monocyte4.84e-3659
monoblast4.84e-3659
promonocyte4.84e-3659
classical monocyte2.23e-3442
CD14-positive, CD16-negative classical monocyte2.23e-3442
macrophage dendritic cell progenitor3.52e-3461
myeloid lineage restricted progenitor cell8.87e-3366
defensive cell1.92e-3248
phagocyte1.92e-3248
granulocyte monocyte progenitor cell4.75e-3167
nucleate cell6.93e-2855
lymphocyte9.56e-2753
common lymphoid progenitor9.56e-2753
lymphoid lineage restricted progenitor cell5.21e-2652
mesenchymal cell9.45e-20354
connective tissue cell1.60e-18361
motile cell2.61e-14386
lymphocyte of B lineage6.88e-1324
pro-B cell6.88e-1324
B cell7.42e-1314
mature alpha-beta T cell3.68e-1218
alpha-beta T cell3.68e-1218
immature T cell3.68e-1218
mature T cell3.68e-1218
immature alpha-beta T cell3.68e-1218
T cell5.79e-1225
pro-T cell5.79e-1225
intermediate monocyte9.46e-119
CD14-positive, CD16-positive monocyte9.46e-119
stuff accumulating cell1.17e-1087
multi fate stem cell7.76e-10427
granulocyte1.24e-098
stem cell1.26e-09441
somatic stem cell3.41e-09433
CD8-positive, alpha-beta T cell1.17e-0811
Uber Anatomy
Ontology termp-valuen
hematopoietic system1.90e-3998
blood island1.90e-3998
hemolymphoid system8.25e-36108
immune system2.57e-2793
bone marrow2.28e-2676
bone element5.95e-2382
skeletal element3.65e-1990
connective tissue2.74e-17371
skeletal system4.66e-16100
lateral plate mesoderm6.66e-11203
blood1.16e-0915
haemolymphatic fluid1.16e-0915
organism substance1.16e-0915
Disease
Ontology termp-valuen
hematologic cancer2.60e-1651
immune system cancer2.60e-1651
leukemia3.29e-1539
myeloid leukemia8.81e-1431


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#199734.258097958807540.01295179875054610.0462341630962943
MYC#460935.22228187160940.007020843755740150.0294525185172616



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.