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AuthentiCT: a model of ancient DNA damage to estimate the proportion of present-day DNA contamination

Peyrégne, Stéphane, Peter, Benjamin M.·2020·Genome Biology
DOI 10.1186/s13059-020-02123-yPMC PMC7490890

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Abstract

Contamination from present-day DNA is a fundamental issue when studying ancient DNA from historical or archaeological material, and quantifying the amount of contamination is essential for downstream analyses. We present AuthentiCT, a command-line tool to estimate the proportion of present-day DNA contamination in ancient DNA datasets generated from single-stranded DNA libraries. The prediction is based solely on the patterns of post-mortem damage observed on ancient DNA sequences. The method has the power to quantify contamination from as few as 10,000 mapped sequences, making it particularly useful for analysing specimens that are poorly preserved or for which little data is available.

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Metadata

Authors
Peyrégne, S., & Peter, B. M.
ORCID
Peyrégne, Stéphane
Venue
Genome Biology
Publisher
Springer Science and Business Media LLC
Published
2020-09-15
Volume
21
Issue
1
ISSN
1474-760X
DOI
10.1186/s13059-020-02123-y
PMC
PMC7490890
Cited by
71
References
22
Language
en
Licence
Funders
  • Max-Planck-Gesellschaft
  • European Research Council (694707)

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