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Old 12-09-2010, 08:16 AM   #1
andrewj
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Default origin of 30X coverage; i.e. why 30X

Hi, at the risk of exposing my ignorance, a question: can someone point me to a reference that established the use of 30X coverage as a goal in sequencing? Where does this number come from? Why not 10X or 50X?
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Old 12-09-2010, 08:48 AM   #2
Jon_Keats
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Usually related to the papers that used SNP arrays and NGS and tested the level of sequencing needed to call all heterozygote SNPs detected on the array by NGS or sanger sequencing. The first good example I remember is the Ventor diploid genome paper in Plos One but a number of similar examples are available. Scan the genome papers that also have a SNP array in the materials and methods and check their supplemental tables. But most I remember show diploid concordance >95% is not reached till around 26x or greater coverage
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