High molecular weight genomic DNA was isolated from breast cancer cells using QIAamp DNA Mini Kit (QIAGEN), and contaminating RNA was digested using RNase One Ribonuclease (Promega) followed by re-purification of DNA, elution with water, and adjustment of DNA concentration to 50 ng/μl. To assess DNA purity, UV/visible absorption spectra were measured, and for all samples the A260/280 ratio was >1.7 and the A260/230 ratio was >2.0. Samples were then submitted to the Epigenomics Core at Weill Cornell Medical College, where bisulfite conversion was carried out followed by DNA methylation analysis using Mass ARRAY EpiTYPER1.2 Suite (Agena Bioscience). The sequence of the CpG island in the GLS2 gene promoter was obtained from human reference genome GRCh38/hg38 using the UCSC Genome Browser (https://genome.ucsc.edu ). Primers for DNA methylation analysis were designed using EpiDesigner (Agena Bioscience) and synthesized by Integrated DNA Technologies (Table S6 ). Relative methylation ratios at CpG sites are presented as a heatmap, generated using MORPHEUS (https://software.broadinstitute.org/morpheus ).
Mass array epityper1.2 suite
Manufactured by Agena
The Mass ARRAY EpiTYPER1.2 Suite is a laboratory equipment product that serves as a platform for DNA methylation analysis. It provides tools for sample preparation, data acquisition, and data analysis related to epigenetic research.
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Lab products found in correlation
2 protocols using mass array epityper1.2 suite
1
DNA Methylation Analysis of GLS2 Promoter
2
DNA Methylation Analysis of GLS2 Promoter
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High molecular weight genomic DNA was isolated from breast cancer cells using QIAamp DNA Mini Kit (QIAGEN), and contaminating RNA was digested using RNase One Ribonuclease (Promega) followed by re-purification of DNA, elution with water, and adjustment of DNA concentration to 50 ng/μl. To assess DNA purity, UV/visible absorption spectra were measured, and for all samples the A260/280 ratio was >1.7 and the A260/230 ratio was >2.0. Samples were then submitted to the Epigenomics Core at Weill Cornell Medical College, where bisulfite conversion was carried out followed by DNA methylation analysis using Mass ARRAY EpiTYPER1.2 Suite (Agena Bioscience). The sequence of the CpG island in the GLS2 gene promoter was obtained from human reference genome GRCh38/hg38 using the UCSC Genome Browser (https://genome.ucsc.edu ). Primers for DNA methylation analysis were designed using EpiDesigner (Agena Bioscience) and synthesized by Integrated DNA Technologies (Table S6 ). Relative methylation ratios at CpG sites are presented as a heatmap, generated using MORPHEUS (https://software.broadinstitute.org/morpheus ).
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