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{{Coexpression_clusters
{{Coexpression_clusters
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|full_id=C3551_acute_Mast_biphenotypic_leukemia_embryonic_small_CD14
|full_id=C3551_acute_Mast_biphenotypic_leukemia_embryonic_small_CD14
|id=C3551
|id=C3551

Revision as of 16:29, 12 September 2012


Full id: C3551_acute_Mast_biphenotypic_leukemia_embryonic_small_CD14



Phase1 CAGE Peaks

Hg19::chr16:28995993..28996015,-p1@CU678918
Hg19::chr16:28996019..28996030,-p3@CU678918
Hg19::chr16:28996032..28996043,-p4@CU678918


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>disease_data<br>

Cell Type
Ontology termp-valuen
hematopoietic stem cell9.69e-40172
angioblastic mesenchymal cell9.69e-40172
hematopoietic oligopotent progenitor cell1.92e-38165
hematopoietic multipotent progenitor cell1.92e-38165
hematopoietic cell2.78e-37182
leukocyte1.08e-33140
myeloid cell5.25e-33112
common myeloid progenitor5.25e-33112
hematopoietic lineage restricted progenitor cell2.89e-32124
myeloid leukocyte1.06e-3076
myeloid lineage restricted progenitor cell1.69e-2970
nongranular leukocyte2.05e-29119
granulocyte monocyte progenitor cell6.94e-2971
CD14-positive, CD16-negative classical monocyte8.57e-2842
classical monocyte3.14e-2545
monopoietic cell1.54e-2463
monocyte1.54e-2463
monoblast1.54e-2463
promonocyte1.54e-2463
macrophage dendritic cell progenitor2.06e-2365
T cell4.44e-1225
pro-T cell4.44e-1225
mature alpha-beta T cell1.68e-1018
alpha-beta T cell1.68e-1018
immature T cell1.68e-1018
mature T cell1.68e-1018
immature alpha-beta T cell1.68e-1018
histamine secreting cell1.35e-095
biogenic amine secreting cell1.35e-095
granulocytopoietic cell1.35e-095
mast cell1.35e-095
mast cell progenitor1.35e-095
basophil mast progenitor cell1.35e-095
mesenchymal cell1.77e-08358
connective tissue cell6.30e-08365
motile cell1.67e-07390
Uber Anatomy
Ontology termp-valuen
hematopoietic system6.41e-36102
blood island6.41e-36102
hemolymphoid system3.50e-32112
bone marrow4.56e-2480
bone element1.52e-2286
immune system6.73e-18115
skeletal element3.59e-17101
skeletal system3.59e-17101
blood1.10e-0915
haemolymphatic fluid1.10e-0915
organism substance1.10e-0915
lateral plate mesoderm4.82e-09216
connective tissue6.11e-08375
Disease
Ontology termp-valuen
leukemia1.80e-1139
myeloid leukemia4.55e-1031
hematologic cancer2.36e-0951
immune system cancer2.36e-0951


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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