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Coexpression cluster:C3200

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Full id: C3200_Endothelial_Hepatic_Lymphatic_testicular_Renal_lung_Mast



Phase1 CAGE Peaks

  Short description
Hg19::chr11:75062661..75062685,- p4@ARRB1
Hg19::chr11:75062686..75062723,- p1@ARRB1
Hg19::chr11:75062730..75062775,- p3@ARRB1


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


Cell Type
Ontology termp-valuen
myeloid cell2.80e-27108
common myeloid progenitor2.80e-27108
myeloid leukocyte1.96e-2572
granulocyte monocyte progenitor cell3.55e-2467
myeloid lineage restricted progenitor cell2.85e-2266
monopoietic cell1.44e-2159
monocyte1.44e-2159
monoblast1.44e-2159
promonocyte1.44e-2159
macrophage dendritic cell progenitor1.86e-2161
defensive cell1.20e-2048
phagocyte1.20e-2048
endothelial cell3.24e-1836
classical monocyte2.67e-1742
CD14-positive, CD16-negative classical monocyte2.67e-1742
meso-epithelial cell2.18e-1445
endothelial cell of vascular tree1.86e-1324
stuff accumulating cell2.35e-1187
blood vessel endothelial cell7.24e-1018
embryonic blood vessel endothelial progenitor cell7.24e-1018
lining cell2.91e-0958
barrier cell2.91e-0958
hematopoietic oligopotent progenitor cell1.05e-07161
hematopoietic multipotent progenitor cell1.05e-07161
hematopoietic stem cell2.41e-07168
angioblastic mesenchymal cell2.41e-07168
Uber Anatomy
Ontology termp-valuen
hemolymphoid system2.03e-24108
adult organism2.00e-21114
immune system2.85e-2193
hematopoietic system1.18e-2098
blood island1.18e-2098
bone marrow6.61e-1976
bone element9.30e-1682
lateral plate mesoderm1.84e-12203
skeletal element6.23e-1190
blood vessel endothelium7.24e-1018
endothelium7.24e-1018
cardiovascular system endothelium7.24e-1018
neural tube9.20e-1056
neural rod9.20e-1056
future spinal cord9.20e-1056
neural keel9.20e-1056
telencephalon9.31e-1034
brain grey matter9.59e-1034
gray matter9.59e-1034
regional part of nervous system9.91e-1053
regional part of brain9.91e-1053
regional part of cerebral cortex2.98e-0922
cerebral hemisphere3.99e-0932
regional part of telencephalon4.56e-0932
skeletal system5.64e-09100
regional part of forebrain8.65e-0941
forebrain8.65e-0941
anterior neural tube8.65e-0941
future forebrain8.65e-0941
neocortex1.03e-0820
central nervous system2.01e-0881
simple squamous epithelium4.97e-0822
brain8.27e-0868
future brain8.27e-0868
mesoderm4.04e-07315
mesoderm-derived structure4.04e-07315
presumptive mesoderm4.04e-07315
squamous epithelium4.85e-0725


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
CCNT2#90536.336201576962630.003930750035764890.0189277330898266
CHD2#1106310.34402283411690.0009033701102746880.0065866427636818
CTCF#1066435.360256373075030.0064925092527670.0278468654558412
E2F1#186934.907389214879320.008460985347239390.0323849904229398
E2F6#187635.017155731697390.00791769806886330.0320671837985812
EGR1#195834.988179094810140.008056488137383440.0319248582706097
EP300#203336.77394172622320.003216880500103790.0166965402321012
HDAC2#3066313.41562023662630.0004140761399857210.00390022528715446
MYC#460935.22228187160940.007020843755740150.0293346895905643
NR3C1#2908314.9730233311730.0002978331194675480.00308065694404985
PAX5#507936.669565531177830.003370290999677260.0172391919735182
SIN3A#2594235.408884726815140.006318961977991520.0275574607491004
ZBTB7A#5134137.35190930787590.002516255860282270.0139680687675146



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.