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{{Coexpression_clusters
{{Coexpression_clusters
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|full_id=C3064_CD34_acute_Mast_Eosinophils_granulocyte_Basophils_CD133
|full_id=C3064_CD34_acute_Mast_Eosinophils_granulocyte_Basophils_CD133
|gostat_on_coexpression_clusters=GO:0048523!negative regulation of cellular process!0.0453595978101755!11186;84458$GO:0048519!negative regulation of biological process!0.0453595978101755!11186;84458
|gostat_on_coexpression_clusters=GO:0048523!negative regulation of cellular process!0.0453595978101755!11186;84458$GO:0048519!negative regulation of biological process!0.0453595978101755!11186;84458

Revision as of 15:55, 12 September 2012


Full id: C3064_CD34_acute_Mast_Eosinophils_granulocyte_Basophils_CD133



Phase1 CAGE Peaks

Hg19::chr10:98591801..98591841,+p3@LCOR
Hg19::chr14:70655839..70655843,+p@chr14:70655839..70655843
+
Hg19::chr3:50375560..50375605,-p8@RASSF1


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

GO IDGO nameFDR corrected p-value
GO:0048523negative regulation of cellular process0.0453595978101755
GO:0048519negative regulation of biological process0.0453595978101755



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>disease_data<br>

Cell Type
Ontology termp-valuen
hematopoietic stem cell3.76e-45172
angioblastic mesenchymal cell3.76e-45172
hematopoietic cell2.21e-44182
hematopoietic oligopotent progenitor cell2.50e-41165
hematopoietic multipotent progenitor cell2.50e-41165
myeloid cell2.74e-35112
common myeloid progenitor2.74e-35112
leukocyte6.65e-34140
hematopoietic lineage restricted progenitor cell9.13e-29124
myeloid leukocyte4.63e-2676
nongranular leukocyte4.85e-25119
granulocyte monocyte progenitor cell7.63e-2371
myeloid lineage restricted progenitor cell2.66e-2270
CD14-positive, CD16-negative classical monocyte2.72e-2142
macrophage dendritic cell progenitor3.82e-1965
classical monocyte4.46e-1945
monopoietic cell2.59e-1863
monocyte2.59e-1863
monoblast2.59e-1863
promonocyte2.59e-1863
mesenchymal cell2.69e-11358
motile cell6.06e-10390
connective tissue cell7.75e-10365
lymphoid lineage restricted progenitor cell5.38e-0752
Uber Anatomy
Ontology termp-valuen
hematopoietic system3.80e-26102
blood island3.80e-26102
hemolymphoid system1.24e-24112
bone marrow3.50e-1880
bone element9.77e-1886
immune system8.94e-15115
skeletal element3.16e-12101
skeletal system3.16e-12101
connective tissue1.93e-09375
blood2.61e-0815
haemolymphatic fluid2.61e-0815
organism substance2.61e-0815
Disease
Ontology termp-valuen
myeloid leukemia1.38e-0831
leukemia4.90e-0839
hematologic cancer5.00e-0751
immune system cancer5.00e-0751


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

No analysis results for this cluster

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.

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