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Coexpression cluster:C1481

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Full id: C1481_CD4_CD8_thymus_CD14CD16_CD14_granulocyte_CD19



Phase1 CAGE Peaks

  Short description
Hg19::chr20:52226313..52226350,- p3@ZNF217
Hg19::chr2:182322070..182322155,+ p1@ITGA4
Hg19::chr2:182322911..182322927,+ p12@ITGA4
Hg19::chr2:182322938..182322962,+ p5@ITGA4
Hg19::chr2:182322965..182322977,+ p13@ITGA4
Hg19::chr2:182322985..182322998,+ p10@ITGA4


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


No GOStat results

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 cell1.12e-79168
angioblastic mesenchymal cell1.12e-79168
hematopoietic cell9.62e-76177
hematopoietic oligopotent progenitor cell1.02e-73161
hematopoietic multipotent progenitor cell1.02e-73161
leukocyte1.35e-62136
hematopoietic lineage restricted progenitor cell4.63e-56120
nongranular leukocyte5.41e-55115
myeloid cell6.02e-38108
common myeloid progenitor6.02e-38108
nucleate cell1.43e-3355
lymphocyte2.33e-3253
common lymphoid progenitor2.33e-3253
lymphoid lineage restricted progenitor cell6.79e-3252
mesenchymal cell2.74e-26354
connective tissue cell1.33e-25361
myeloid lineage restricted progenitor cell4.84e-2366
granulocyte monocyte progenitor cell6.85e-2367
myeloid leukocyte1.08e-2272
motile cell5.82e-21386
macrophage dendritic cell progenitor1.86e-2061
monopoietic cell4.40e-2059
monocyte4.40e-2059
monoblast4.40e-2059
promonocyte4.40e-2059
classical monocyte1.16e-1942
CD14-positive, CD16-negative classical monocyte1.16e-1942
defensive cell6.91e-1848
phagocyte6.91e-1848
multi fate stem cell5.90e-17427
T cell1.73e-1625
pro-T cell1.73e-1625
stem cell2.13e-16441
mature alpha-beta T cell5.80e-1618
alpha-beta T cell5.80e-1618
immature T cell5.80e-1618
mature T cell5.80e-1618
immature alpha-beta T cell5.80e-1618
somatic stem cell6.23e-16433
lymphocyte of B lineage5.78e-1424
pro-B cell5.78e-1424
CD8-positive, alpha-beta T cell2.75e-1111
B cell4.17e-1114
intermediate monocyte1.34e-079
CD14-positive, CD16-positive monocyte1.34e-079
Uber Anatomy
Ontology termp-valuen
hematopoietic system3.92e-3398
blood island3.92e-3398
hemolymphoid system2.95e-29108
connective tissue7.90e-24371
immune system9.44e-2193
bone marrow9.38e-2076
bone element1.26e-1982
skeletal element3.12e-1790
skeletal system5.95e-15100
blood1.41e-1015
haemolymphatic fluid1.41e-1015
organism substance1.41e-1015
lateral plate mesoderm8.96e-07203
Disease
Ontology termp-valuen
hematologic cancer3.58e-1751
immune system cancer3.58e-1751
leukemia8.87e-1539
myeloid leukemia1.05e-1231


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
CTCF#1066454.466880310895860.001144848346172360.00783633611390057
EBF1#187945.937644564379340.001975153636421710.0114914528791848
EGR1#195854.156815912341780.001617966818864440.0101348789417251
GATA1#2623511.30025678650041.22736455569136e-050.000305274414936533
MAX#414955.377129590839270.000467001558889580.0042949256612248
MYC#460965.22228187160944.92821127172503e-050.000854269638187039
NFKB1#479054.57338618682820.00102196259371130.00724692771079672
POLR2A#543062.147453176558070.01019570676818780.038048646436174
SIN3A#2594243.605923151210090.01273893844487140.0459454360687889
TAF1#687252.785871904787740.01078636340290410.0397978169800006
USF1#739144.240999518138640.007005367750829420.0296088062536978
YY1#752854.092642291544880.001743365462849530.0107267200173525



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.