Polyphonia: detecting inter-sample contamination in viral genomic sequencing data
Lydia A Krasilnikova, Christopher H Tomkins-Tinch, Alton C Gayton, Stephen F Schaffner, Sabrina T Dobbins, Adrianne Gladden-Young, Katherine J Siddle, Daniel J Park, Pardis C Sabeti, Can Alkan · 2024
Read Polyphonia: detecting inter-sample contamination in viral genomic sequencing data by Lydia A Krasilnikova, Christopher H Tomkins-Tinch, Alton C Gayton, Stephen F Schaffner, Sabrina T Dobbins, Adrianne Gladden-Young, Katherine J Siddle, Daniel J Park, Pardis C Sabeti, Can Alkan (2024) in the Tower of Babel, a free online library of public-domain works preserved in clean, searchable text. No sign-up. The full text is served as a plain-text file at a predictable URL, where text is present: https://antarctic-labs.com/tower-of-babel/pmc-11652266.txt.
Description
SummaryIn viral genomic research and surveillance, inter-sample contamination can affect variant detection, analysis of within-host evolution, outbreak reconstruction, and detection of superinfections and recombination events. While sample barcoding methods exist to track inter-sample contamination, they are not always used and can only detect contamination in the experimental pipeline from the point they are added.
Catalog record
| CREATOR | Lydia A Krasilnikova, Christopher H Tomkins-Tinch, Alton C Gayton, Stephen F Schaffner, Sabrina T Dobbins, Adrianne Gladden-Young, Katherine J Siddle, Daniel J Park, Pardis C Sabeti, Can Alkan |
|---|---|
| YEAR | 2024 |
| COLLECTION | PAPERS |
| FORMAT | TXT |
| FILE SIZE | 21 KB |
| VERSION | 1.0 |
| LICENSE | CC BY 4.0 |
| RIGHTS | CC BY |
| SOURCE | Europe PMC |