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Coexpression cluster:C1558

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Full id: C1558_CD19_CD8_CD4_Mesenchymal_MCF7_CD14CD16_CD14



Phase1 CAGE Peaks

  Short description
Hg19::chr10:104614236..104614277,- p@chr10:104614236..104614277
-
Hg19::chr16:2827358..2827403,+ p1@AK056451
Hg19::chr1:245027971..245027998,+ p@chr1:245027971..245027998
+
Hg19::chr5:43484033..43484098,+ p1@ENST00000504469
Hg19::chr8:135725363..135725407,+ p@chr8:135725363..135725407
+


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
leukocyte9.06e-39140
hematopoietic cell2.04e-34182
hematopoietic stem cell4.43e-34172
angioblastic mesenchymal cell4.43e-34172
hematopoietic lineage restricted progenitor cell2.27e-32124
hematopoietic oligopotent progenitor cell6.49e-31165
hematopoietic multipotent progenitor cell6.49e-31165
nongranular leukocyte2.34e-30119
classical monocyte7.98e-1945
myeloid leukocyte9.78e-1976
CD14-positive, CD16-negative classical monocyte2.07e-1842
lymphoid lineage restricted progenitor cell8.92e-1652
granulocyte monocyte progenitor cell9.47e-1671
myeloid lineage restricted progenitor cell1.12e-1570
myeloid cell1.64e-15112
common myeloid progenitor1.64e-15112
lymphocyte2.19e-1553
common lymphoid progenitor2.19e-1553
macrophage dendritic cell progenitor1.77e-1465
monopoietic cell8.56e-1463
monocyte8.56e-1463
monoblast8.56e-1463
promonocyte8.56e-1463
mature alpha-beta T cell5.38e-1118
alpha-beta T cell5.38e-1118
immature T cell5.38e-1118
mature T cell5.38e-1118
immature alpha-beta T cell5.38e-1118
CD8-positive, alpha-beta T cell2.50e-0811
B cell6.51e-0814
lymphocyte of B lineage9.05e-0824
pro-B cell9.05e-0824
T cell9.08e-0825
pro-T cell9.08e-0825
mesenchymal cell9.44e-07358
Uber Anatomy
Ontology termp-valuen
hematopoietic system2.62e-21102
blood island2.62e-21102
hemolymphoid system4.77e-20112
bone marrow1.31e-1580
bone element1.72e-1286
immune system4.29e-11115
skeletal element2.36e-08101
skeletal system2.36e-08101
neural tube4.08e-0857
neural rod4.08e-0857
future spinal cord4.08e-0857
neural keel4.08e-0857
lateral plate mesoderm2.31e-07216


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


No analysis results for this cluster

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.