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Coexpression cluster:C3740

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Full id: C3740_granulocyte_Neutrophils_Eosinophils_immature_acute_CD14_blood



Phase1 CAGE Peaks

  Short description
Hg19::chr18:74844713..74844724,- p5@MBP
Hg19::chr2:74212029..74212067,+ p1@ENST00000441217
Hg19::chr2:74212073..74212109,+ p2@ENST00000441217


Enriched pathways on this co-expression clusterSummary:
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.
Analyst: Emmanuel Dimont

link to source dataset
data


No results for this coexpression

Enriched Gene Ontology terms on this co-expression clusterSummary: 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.
Analyst: Erik Arner

link to source dataset
data


GO IDGO nameFDR corrected p-value
GO:0043209myelin sheath0.00158954433062522
GO:0019911structural constituent of myelin sheath0.00437124690921936
GO:0008366axon ensheathment0.00635817732250088
GO:0007272ensheathment of neurons0.00635817732250088
GO:0001508regulation of action potential0.00635817732250088
GO:0007417central nervous system development0.0311285764747439
GO:0007268synaptic transmission0.0327843518191452
GO:0019226transmission of nerve impulse0.0327843518191452



Enriched sample ontology terms on this co-expression clusterSummary: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. Analyst: Hideya Kawaji

links to source dataset

cell_data
uberon_data
disease_data


Cell Type
Ontology termp-valuen
hematopoietic stem cell7.09e-68168
angioblastic mesenchymal cell7.09e-68168
hematopoietic cell2.46e-64177
hematopoietic oligopotent progenitor cell5.83e-64161
hematopoietic multipotent progenitor cell5.83e-64161
leukocyte3.89e-60136
nongranular leukocyte5.75e-50115
hematopoietic lineage restricted progenitor cell7.00e-50120
myeloid cell1.87e-43108
common myeloid progenitor1.87e-43108
myeloid leukocyte1.44e-3672
granulocyte monocyte progenitor cell3.11e-3367
macrophage dendritic cell progenitor1.58e-3161
myeloid lineage restricted progenitor cell1.52e-3066
monopoietic cell2.99e-3059
monocyte2.99e-3059
monoblast2.99e-3059
promonocyte2.99e-3059
defensive cell2.49e-2748
phagocyte2.49e-2748
classical monocyte7.88e-2542
CD14-positive, CD16-negative classical monocyte7.88e-2542
lymphocyte2.58e-1753
common lymphoid progenitor2.58e-1753
lymphoid lineage restricted progenitor cell4.65e-1752
nucleate cell7.07e-1755
T cell4.00e-0925
pro-T cell4.00e-0925
lymphocyte of B lineage7.25e-0824
pro-B cell7.25e-0824
stuff accumulating cell2.34e-0787
mature alpha-beta T cell4.74e-0718
alpha-beta T cell4.74e-0718
immature T cell4.74e-0718
mature T cell4.74e-0718
immature alpha-beta T cell4.74e-0718
Uber Anatomy
Ontology termp-valuen
hematopoietic system4.46e-3598
blood island4.46e-3598
hemolymphoid system5.78e-31108
bone marrow1.91e-2576
immune system5.22e-2493
bone element1.02e-2382
skeletal element1.58e-1890
skeletal system7.05e-14100
blood4.41e-0815
haemolymphatic fluid4.41e-0815
organism substance4.41e-0815
Disease
Ontology termp-valuen
hematologic cancer1.37e-1051
immune system cancer1.37e-1051
leukemia1.58e-0939
myeloid leukemia2.75e-0731


Overrepresented TFBS (DNA) motifs on this co-expression clusterSummary: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. Analyst: Michiel de Hoon

link to source data
Novel motifs
data

Jaspar motifs
data


Novel motifs



JASPAR motifs

Motifs-log10(p-value)

{{{tfbs_overrepresentation_jaspar}}}



ENCODE TF ChIP-seq peak enrichment analysisSummary: 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.
Analyst: Erik Arner

link to source dataset

data


(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF#promotersEnrichmentp-valueq-value
BHLHE40#8553229.91454236465160.001467483527106140.00939626706440063
E2F1#186934.907389214879320.008460985347239390.03251966469217
NFKB1#479035.488063424193840.006049381815655430.026951257889482



Relative expression of the co-expression clusterSummary:Co-expression clusters are compared against FANTOM5 samples to obtain relative expression.
Analyst:NA

link to data source
data


This analysis result is provided for C0 - C305 clusters.