How to obtain DNA sequences of megabase-sized ecDNA in cancer cells?

11 September 2022 1 5K Report

i would like to analyze DNA sequences of megabase-sized ecDNA in cancer cells, especially ones in breast cancer (TNBC ideally) and lung cancer.

1. how can i obtain such DNA sequences?

2. besides BLAST, what are other tools are recommended for analyzing raw DNA sequences?

Barry James Barclay

Hi Clarence I have only sequenced extrachromosomal DNA in yeast and cancer cells of course are much more complex and require specialized techniques. Perhaps these folks might be of help. DOI: 10.1186/s13072-021-00416-5

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