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Integragen sa snp array experiments
( a ) An integrative ‘cluster of cluster' approach was used to define robust molecular subtypes of 141 oligodendroglial tumours. Consensus clustering was used to assign molecular classes on the basis of mRNA <t>data,</t> <t>DNA</t> methylation data and microRNA data independently. Consensus ‘clusters of clusters' were subsequently identified on the basis of the classes labels resulting from previous independent classifications. ( b ) Clinical annotations and common genomic alterations associated to each subtype. Genomic alterations were identified through the analysis of <t>SNP</t> arrays. For each clinical and molecular characteristic we performed χ 2 tests to assess the strength of association with the five-class system.
Snp Array Experiments, supplied by Integragen sa, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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Article Title: Integrated multi-omics analysis of oligodendroglial tumours identifies three subgroups of 1p/19q co-deleted gliomas

Journal: Nature Communications

doi: 10.1038/ncomms11263

( a ) An integrative ‘cluster of cluster' approach was used to define robust molecular subtypes of 141 oligodendroglial tumours. Consensus clustering was used to assign molecular classes on the basis of mRNA data, DNA methylation data and microRNA data independently. Consensus ‘clusters of clusters' were subsequently identified on the basis of the classes labels resulting from previous independent classifications. ( b ) Clinical annotations and common genomic alterations associated to each subtype. Genomic alterations were identified through the analysis of SNP arrays. For each clinical and molecular characteristic we performed χ 2 tests to assess the strength of association with the five-class system.
Figure Legend Snippet: ( a ) An integrative ‘cluster of cluster' approach was used to define robust molecular subtypes of 141 oligodendroglial tumours. Consensus clustering was used to assign molecular classes on the basis of mRNA data, DNA methylation data and microRNA data independently. Consensus ‘clusters of clusters' were subsequently identified on the basis of the classes labels resulting from previous independent classifications. ( b ) Clinical annotations and common genomic alterations associated to each subtype. Genomic alterations were identified through the analysis of SNP arrays. For each clinical and molecular characteristic we performed χ 2 tests to assess the strength of association with the five-class system.

Techniques Used: DNA Methylation Assay

Related Articles

Gene Expression:

Article Title: Allelic loss of 9p21.3 is a prognostic factor in 1p/19q codeleted anaplastic gliomas
Article Snippet: Single nucleotide polymorphism (SNP) array hybridizations were outsourced to Integragen, as previously reported.

Article Title: CDKN2A homozygous deletion is a strong adverse prognosis factor in diffuse malignant IDH -mutant gliomas
Article Snippet: Outsourced for the SNP array experiments (Integragen) was 1.5 μg of DNA.

Article Title: CDKN2A homozygous deletion is a strong adverse prognosis factor in diffuse malignant IDH -mutant gliomas
Article Snippet: IDH mutation status was assessed by immunohistochemistry with anti– IDH1 R132H antibody (clone H09, 1/75, Dianova) and in almost all cases (901/911) by direct sequencing using the Sanger method and primers as previously described.

Article Title: Allelic loss of 9p21.3 is a prognostic factor in 1p/19q codeleted anaplastic gliomas
Article Snippet: 8 Single nucleotide polymorphism (SNP) array hybridizations were outsourced to Integragen, as previously reported.

Article Title: Integrated multi-omics analysis of oligodendroglial tumours identifies three subgroups of 1p/19q co-deleted gliomas.
Article Snippet: A 1-mg volume from each DNA and RNA sample was used for SNP array experiments (outsourced to the Integragen Company Paris, France) and to perform the gene expression analysis, respectively.

Article Title: Integrated multi-omics analysis of oligodendroglial tumours identifies three subgroups of 1p/19q co-deleted gliomas
Article Snippet: A 1-μg volume from each DNA and RNA sample was used for SNP array experiments (outsourced to the Integragen Company Paris, France) and to perform the gene expression analysis, respectively.

Article Title: Mitotic index, microvascular proliferation, and necrosis define 3 groups of 1p/19q codeleted anaplastic oligodendrogliomas associated with different genomic alterations
Article Snippet: 1.5 μg of DNA was outsourced to Integragen Company for the SNP array experiments.

DNA Methylation Assay:

Article Title: Allelic loss of 9p21.3 is a prognostic factor in 1p/19q codeleted anaplastic gliomas
Article Snippet: Single nucleotide polymorphism (SNP) array hybridizations were outsourced to Integragen, as previously reported.

Article Title: CDKN2A homozygous deletion is a strong adverse prognosis factor in diffuse malignant IDH -mutant gliomas
Article Snippet: Outsourced for the SNP array experiments (Integragen) was 1.5 μg of DNA.

Article Title: CDKN2A homozygous deletion is a strong adverse prognosis factor in diffuse malignant IDH -mutant gliomas
Article Snippet: IDH mutation status was assessed by immunohistochemistry with anti– IDH1 R132H antibody (clone H09, 1/75, Dianova) and in almost all cases (901/911) by direct sequencing using the Sanger method and primers as previously described.

Article Title: Allelic loss of 9p21.3 is a prognostic factor in 1p/19q codeleted anaplastic gliomas
Article Snippet: 8 Single nucleotide polymorphism (SNP) array hybridizations were outsourced to Integragen, as previously reported.

Article Title: Integrated multi-omics analysis of oligodendroglial tumours identifies three subgroups of 1p/19q co-deleted gliomas.
Article Snippet: A 1-mg volume from each DNA and RNA sample was used for SNP array experiments (outsourced to the Integragen Company Paris, France) and to perform the gene expression analysis, respectively.

Article Title: Integrated multi-omics analysis of oligodendroglial tumours identifies three subgroups of 1p/19q co-deleted gliomas
Article Snippet: A 1-μg volume from each DNA and RNA sample was used for SNP array experiments (outsourced to the Integragen Company Paris, France) and to perform the gene expression analysis, respectively.

Article Title: Mitotic index, microvascular proliferation, and necrosis define 3 groups of 1p/19q codeleted anaplastic oligodendrogliomas associated with different genomic alterations
Article Snippet: 1.5 μg of DNA was outsourced to Integragen Company for the SNP array experiments.



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