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Coexpression cluster:C3295

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Full id: C3295_myeloma_lymphangiectasia_CD4_adult_mycosis_CD8_hereditary



Phase1 CAGE Peaks

Hg19::chr12:53601025..53601043,-p1@ITGB7
Hg19::chr12:53601055..53601073,-p2@ITGB7
Hg19::chr12:9823796..9823803,-p@chr12:9823796..9823803
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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>disease_data<br>


Cell Type
Ontology termp-valuen
hematopoietic stem cell2.46e-72172
angioblastic mesenchymal cell2.46e-72172
hematopoietic oligopotent progenitor cell3.99e-69165
hematopoietic multipotent progenitor cell3.99e-69165
hematopoietic cell4.68e-65182
leukocyte2.37e-62140
hematopoietic lineage restricted progenitor cell4.32e-54124
nongranular leukocyte2.61e-53119
myeloid cell5.75e-34112
common myeloid progenitor5.75e-34112
lymphocyte1.16e-3253
common lymphoid progenitor1.16e-3253
lymphoid lineage restricted progenitor cell4.01e-3252
myeloid leukocyte1.10e-2376
granulocyte monocyte progenitor cell1.03e-2171
myeloid lineage restricted progenitor cell1.52e-2070
macrophage dendritic cell progenitor5.29e-2065
monopoietic cell8.80e-1963
monocyte8.80e-1963
monoblast8.80e-1963
promonocyte8.80e-1963
CD14-positive, CD16-negative classical monocyte3.89e-1842
classical monocyte5.75e-1745
lymphocyte of B lineage1.39e-1524
pro-B cell1.39e-1524
T cell2.71e-1525
pro-T cell2.71e-1525
mature alpha-beta T cell3.10e-1418
alpha-beta T cell3.10e-1418
immature T cell3.10e-1418
mature T cell3.10e-1418
immature alpha-beta T cell3.10e-1418
mesenchymal cell2.37e-10358
CD8-positive, alpha-beta T cell1.52e-0911
connective tissue cell1.91e-09365
B cell5.18e-0914
Uber Anatomy
Ontology termp-valuen
hematopoietic system7.06e-29102
blood island7.06e-29102
hemolymphoid system6.65e-26112
bone marrow1.56e-1980
bone element6.98e-1786
immune system1.09e-13115
adult organism1.26e-12115
skeletal element1.57e-12101
skeletal system1.57e-12101
connective tissue9.33e-09375
blood8.69e-0715
haemolymphatic fluid8.69e-0715
organism substance8.69e-0715
Disease
Ontology termp-valuen
hematologic cancer1.25e-1351
immune system cancer1.25e-1351
leukemia2.63e-1039
myeloid leukemia1.86e-0831


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.