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Coexpression cluster:C1587

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Full id: C1587_CD14CD16_Basophils_CD14_Natural_Eosinophils_Peripheral_CD8



Phase1 CAGE Peaks

Hg19::chr10:60026744..60026760,-p@chr10:60026744..60026760
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Hg19::chr11:82905634..82905658,-p@chr11:82905634..82905658
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Hg19::chr17:81039606..81039613,-p@chr17:81039606..81039613
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Hg19::chr17:81039627..81039643,-p@chr17:81039627..81039643
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Hg19::chr3:56792677..56792690,-p@chr3:56792677..56792690
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Enriched pathways on this co-expression cluster<b>Summary:</b><br>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.<br><b>Analyst: </b>Emmanuel Dimont<br><br>link to source dataset<br>data


No results for this coexpression

Enriched Gene Ontology terms on this co-expression cluster<b>Summary:</b> 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. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br>data


No GOStat results

Enriched sample ontology terms on this co-expression cluster<b>Summary:</b>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. <b>Analyst:</b> Hideya Kawaji <br><br>links to source dataset<br><br>cell_data<br>uberon_data<br><br>


Cell Type
Ontology termp-valuen
myeloid leukocyte6.34e-8072
classical monocyte6.24e-7542
CD14-positive, CD16-negative classical monocyte6.24e-7542
defensive cell1.70e-6448
phagocyte1.70e-6448
leukocyte8.81e-64136
myeloid lineage restricted progenitor cell2.37e-5966
granulocyte monocyte progenitor cell2.44e-5867
monopoietic cell1.43e-5659
monocyte1.43e-5659
monoblast1.43e-5659
promonocyte1.43e-5659
macrophage dendritic cell progenitor1.85e-5461
myeloid cell1.85e-52108
common myeloid progenitor1.85e-52108
hematopoietic stem cell1.67e-51168
angioblastic mesenchymal cell1.67e-51168
nongranular leukocyte1.11e-48115
hematopoietic cell2.73e-48177
hematopoietic oligopotent progenitor cell1.80e-47161
hematopoietic multipotent progenitor cell1.80e-47161
hematopoietic lineage restricted progenitor cell9.21e-46120
intermediate monocyte5.20e-329
CD14-positive, CD16-positive monocyte5.20e-329
stuff accumulating cell8.65e-3287
granulocyte1.86e-218
mesenchymal cell3.92e-19354
connective tissue cell1.59e-18361
motile cell2.22e-16386
blood cell2.69e-1511
stem cell8.69e-14441
multi fate stem cell9.30e-14427
somatic stem cell2.14e-13433
non-classical monocyte7.90e-123
CD14-low, CD16-positive monocyte7.90e-123
basophil1.01e-113
natural killer cell1.83e-113
pro-NK cell1.83e-113
single nucleate cell5.69e-113
mononuclear cell5.69e-113
eosinophil2.02e-082
somatic cell4.18e-07588
Uber Anatomy
Ontology termp-valuen
bone marrow2.08e-5076
bone element4.44e-4682
hematopoietic system1.61e-4498
blood island1.61e-4498
skeletal element3.39e-4190
immune system1.40e-3993
hemolymphoid system1.62e-39108
skeletal system3.49e-36100
musculoskeletal system4.71e-18167
connective tissue1.08e-17371
lateral plate mesoderm1.61e-16203
mesoderm5.55e-08315
mesoderm-derived structure5.55e-08315
presumptive mesoderm5.55e-08315


Overrepresented TFBS (DNA) motifs on this co-expression cluster<b>Summary:</b>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. <b>Analyst:</b> Michiel de Hoon <br><br>link to source data <br> Novel motifs <br>data <br><br> Jaspar motifs <br>data


Novel motifs



JASPAR motifs

Motifs-log10(p-value)

{{{tfbs_overrepresentation_jaspar}}}



ENCODE TF ChIP-seq peak enrichment analysis<b>Summary:</b> 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. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br><br>data


(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF#promotersEnrichmentp-valueq-value
GATA3#2625210.89460654288240.0125158291218830.0452736449729961
MYC#460944.177825497287520.005691969036823440.0256676836889812
SMARCC1#6599217.46534372785260.005008037385199390.023374795158779



Relative expression of the co-expression cluster<b>Summary:</b>Co-expression clusters are compared against FANTOM5 samples to obtain relative expression. <br><b>Analyst:</b>NA<br><br>link to data source<br> data


This analysis result is provided for C0 - C305 clusters.