High confidence identification of intra-host single nucleotide variants for person-to-person influenza transmission tracking in congregate settings
Irina Maljkovic Berry, Todd J. Treangen, Christian Fung, Sheldon Tai, Simon Pollett, Filbert H. Hong, Tao Li, Papa K. Pireku, Ashley Thommana, Jennifer R. German, P. Jacob Bueno de Mesquita, Wiriya Rutvisuttinunt, Michael Panciera, Grace M. Lidl, Matthew B. Frieman, , Donald Kirby Milton
The paper identifies intra-host single nucleotide variants (iSNVs) in influenza samples to track transmission links, finding that technical and systematic errors affect iSNV calling and that self-reference reduces noise.
bioRxiv · Jul 1, 2021 · PreprintGenomics