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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
leukocyte4.22e-22140
nongranular leukocyte1.04e-17119
hematopoietic lineage restricted progenitor cell2.39e-16124
CD14-positive, CD16-negative classical monocyte8.64e-1542
classical monocyte1.24e-1445
hematopoietic stem cell3.52e-14172
angioblastic mesenchymal cell3.52e-14172
hematopoietic oligopotent progenitor cell7.59e-13165
hematopoietic multipotent progenitor cell7.59e-13165
hematopoietic cell1.19e-12182
myeloid leukocyte3.03e-1176
macrophage dendritic cell progenitor3.74e-0965
granulocyte monocyte progenitor cell6.86e-0971
lymphocyte7.45e-0953
common lymphoid progenitor7.45e-0953
monopoietic cell9.08e-0963
monocyte9.08e-0963
monoblast9.08e-0963
promonocyte9.08e-0963
lymphoid lineage restricted progenitor cell1.37e-0852
myeloid lineage restricted progenitor cell3.83e-0870
Uber Anatomy
Ontology termp-valuen
adult organism7.18e-30115
neural tube2.02e-2157
neural rod2.02e-2157
future spinal cord2.02e-2157
neural keel2.02e-2157
regional part of forebrain1.11e-1841
forebrain1.11e-1841
future forebrain1.11e-1841
anterior neural tube9.26e-1842
regional part of brain6.03e-1759
brain6.69e-1669
future brain6.69e-1669
central nervous system5.45e-1582
gray matter7.10e-1534
brain grey matter7.10e-1534
telencephalon1.39e-1434
regional part of telencephalon3.29e-1433
cerebral hemisphere2.19e-1332
neural plate3.78e-1386
presumptive neural plate3.78e-1386
neurectoderm8.43e-1390
regional part of cerebral cortex1.86e-1222
regional part of nervous system2.20e-1294
nervous system2.20e-1294
neocortex3.63e-1120
hematopoietic system2.05e-10102
blood island2.05e-10102
pre-chordal neural plate2.19e-1061
hemolymphoid system6.19e-10112
cerebral cortex1.06e-0925
pallium1.06e-0925
anterior region of body2.54e-09129
craniocervical region2.54e-09129
head2.84e-08123
basal ganglion4.71e-079
nuclear complex of neuraxis4.71e-079
aggregate regional part of brain4.71e-079
collection of basal ganglia4.71e-079
cerebral subcortex4.71e-079
nucleus of brain5.62e-079
neural nucleus5.62e-079
bone marrow6.29e-0780


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.