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Coexpression cluster:C4079

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Full id: C4079_CD4_CD8_CD14_cerebellum_CD19_Natural_occipital



Phase1 CAGE Peaks

  Short description
Hg19::chr21:43712617..43712632,+ p@chr21:43712617..43712632
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Hg19::chr21:43712634..43712683,+ p@chr21:43712634..43712683
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Hg19::chr21:43712787..43712803,+ p@chr21:43712787..43712803
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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
leukocyte6.22e-16136
nongranular leukocyte9.85e-15115
classical monocyte3.35e-1342
CD14-positive, CD16-negative classical monocyte3.35e-1342
hematopoietic lineage restricted progenitor cell5.44e-13120
defensive cell9.43e-1148
phagocyte9.43e-1148
hematopoietic stem cell7.95e-10168
angioblastic mesenchymal cell7.95e-10168
hematopoietic oligopotent progenitor cell2.09e-09161
hematopoietic multipotent progenitor cell2.09e-09161
hematopoietic cell2.17e-09177
myeloid leukocyte1.83e-0872
monopoietic cell2.02e-0759
monocyte2.02e-0759
monoblast2.02e-0759
promonocyte2.02e-0759
macrophage dendritic cell progenitor2.07e-0761
lymphocyte3.31e-0753
common lymphoid progenitor3.31e-0753
granulocyte monocyte progenitor cell3.77e-0767
lymphoid lineage restricted progenitor cell4.79e-0752
myeloid lineage restricted progenitor cell7.12e-0766
Uber Anatomy
Ontology termp-valuen
neural tube2.09e-2556
neural rod2.09e-2556
future spinal cord2.09e-2556
neural keel2.09e-2556
regional part of nervous system8.28e-2453
regional part of brain8.28e-2453
adult organism2.27e-23114
regional part of forebrain1.33e-2141
forebrain1.33e-2141
anterior neural tube1.33e-2141
future forebrain1.33e-2141
brain2.94e-1968
future brain2.94e-1968
central nervous system9.96e-1981
nervous system4.64e-1789
brain grey matter9.26e-1734
gray matter9.26e-1734
telencephalon1.98e-1634
regional part of telencephalon2.39e-1532
cerebral hemisphere4.73e-1532
neural plate5.68e-1482
presumptive neural plate5.68e-1482
neurectoderm8.87e-1486
regional part of cerebral cortex4.21e-1322
pre-chordal neural plate6.76e-1261
neocortex1.67e-1120
cerebral cortex1.32e-1025
pallium1.32e-1025
ecto-epithelium1.20e-09104
hematopoietic system9.95e-0998
blood island9.95e-0998
hemolymphoid system1.32e-08108
basal ganglion3.23e-089
nuclear complex of neuraxis3.23e-089
aggregate regional part of brain3.23e-089
collection of basal ganglia3.23e-089
cerebral subcortex3.23e-089
neural nucleus4.28e-089
nucleus of brain4.28e-089
diencephalon6.68e-077
future diencephalon6.68e-077


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
EBF1#187938.9064668465690.00141523283560980.00916339132785197



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.