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Coexpression cluster:C1238

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Full id: C1238_CD34_CD14_Eosinophils_CD8_Natural_CD19_Peripheral



Phase1 CAGE Peaks

Hg19::chr19:1248314..1248335,+p9@MIDN
Hg19::chr1:2222149..2222184,-p@chr1:2222149..2222184
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Hg19::chr1:2232428..2232442,-p@chr1:2232428..2232442
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Hg19::chr1:2232455..2232495,-p@chr1:2232455..2232495
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Hg19::chr1:2232583..2232594,-p@chr1:2232583..2232594
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Hg19::chr3:114866901..114866924,+p@chr3:114866901..114866924
+
Hg19::chr8:41997529..41997538,+p@chr8:41997529..41997538
+


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
leukocyte8.12e-59136
hematopoietic stem cell1.07e-50168
angioblastic mesenchymal cell1.07e-50168
hematopoietic cell3.62e-47177
hematopoietic lineage restricted progenitor cell1.49e-46120
classical monocyte4.40e-4642
CD14-positive, CD16-negative classical monocyte4.40e-4642
myeloid leukocyte1.40e-4572
nongranular leukocyte1.98e-43115
hematopoietic oligopotent progenitor cell8.90e-43161
hematopoietic multipotent progenitor cell8.90e-43161
granulocyte monocyte progenitor cell1.91e-3967
defensive cell4.48e-3948
phagocyte4.48e-3948
myeloid lineage restricted progenitor cell4.89e-3866
myeloid cell3.33e-32108
common myeloid progenitor3.33e-32108
macrophage dendritic cell progenitor3.77e-3261
monopoietic cell1.73e-3159
monocyte1.73e-3159
monoblast1.73e-3159
promonocyte1.73e-3159
intermediate monocyte5.51e-199
CD14-positive, CD16-positive monocyte5.51e-199
stuff accumulating cell2.67e-1787
mesenchymal cell2.33e-14354
CD4-positive, alpha-beta T cell6.89e-146
connective tissue cell9.80e-14361
histamine secreting cell1.28e-115
biogenic amine secreting cell1.28e-115
granulocytopoietic cell1.28e-115
mast cell1.28e-115
mast cell progenitor1.28e-115
basophil mast progenitor cell1.28e-115
motile cell1.49e-11386
T cell1.77e-1025
pro-T cell1.77e-1025
lymphoid lineage restricted progenitor cell5.69e-1052
stem cell7.36e-10441
lymphocyte1.08e-0953
common lymphoid progenitor1.08e-0953
mature alpha-beta T cell3.05e-0918
alpha-beta T cell3.05e-0918
immature T cell3.05e-0918
mature T cell3.05e-0918
immature alpha-beta T cell3.05e-0918
nucleate cell3.60e-0955
multi fate stem cell6.30e-09427
somatic stem cell1.43e-08433
natural killer cell2.65e-083
pro-NK cell2.65e-083
single nucleate cell6.38e-083
mononuclear cell6.38e-083
basophil6.53e-083
naive T cell2.04e-073
plasmacytoid dendritic cell2.96e-073
granulocyte4.49e-078
non-classical monocyte9.30e-073
CD14-low, CD16-positive monocyte9.30e-073
Uber Anatomy
Ontology termp-valuen
bone marrow1.50e-3576
hematopoietic system1.47e-3398
blood island1.47e-3398
bone element4.12e-3282
immune system2.90e-3093
hemolymphoid system2.87e-29108
skeletal element3.04e-2890
skeletal system2.75e-24100
connective tissue6.91e-13371
musculoskeletal system2.90e-10167
lateral plate mesoderm5.89e-10203


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
EBF1#187956.361762033263580.0003078439918611820.00316976423799566
ELF1#199753.041498542005380.009719562269370750.036568369316287
FOS#235367.712533121909491.19258382729196e-050.000301433355127166
FOSL1#8061211.34673706182090.01223664790675720.0443651763776231
PAX5#507954.763975379412740.001218821047007470.00820130476956465
RFX5#599346.884520472682910.001352207031528580.0089037986360137
SPI1#668844.688184862012990.005685680529144170.0256681416436106



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.