I have downloaded the COSMIC mutation data (.maf file). Now for each mutation, I want to extract one base to the left and right of all SNPs. How can I do that? If I download the hg38 reference genome, can I use the variant position to extract bases to the left and right of the mutation? Will that take into account the within-sample variation that each cancer sample might have had?
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The complexity of cancer is clearly demonstrated in the diverse ecosystem of the tumor microenvironment (TME). The TME is made up of numerous cell types and its development begins with the changes that happen during oncogenesis. “Genomic mutations, copy number changes, epigenetic alterations, and alternative gene expression occur to varying degrees within the affected tumor cells,” explained Andrea O’Hara, Ph.D., Strategic Technical Specialist at Azenta. “As...-
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07-08-2024, 03:19 PM -
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