ppat.1009431.s004.pdf (1.01 MB)
Effect of downsampling on haplotype detection.
journal contribution
posted on 2021-04-08, 17:27 authored by Sung Hee Ko, Elham Bayat Mokhtari, Prakriti Mudvari, Sydney Stein, Christopher D. Stringham, Danielle Wagner, Sabrina Ramelli, Marcos J. Ramos-Benitez, Jeffrey R. Strich, Richard T. Davey Jr., Tongqing Zhou, John Misasi, Peter D. Kwong, Daniel S. Chertow, Nancy J. Sullivan, Eli A. BoritzEach subsample was generated by random draws of a fixed percentage from reads without replacement. This process was repeated 100 times for each percentage. (A) The initial numbers of UMI bins (y-axis) are shown for different degrees of downsampling (x-axis). (B) The minimum read counts per UMI bin (y-axis) are shown for different degrees of downsampling (x-axis). (C) Proportion of each haplotype present in the 100% sample and in each subsample. Data analyzed are from sequencing of participant 1, day 15.
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WAhumoral immunityCOVID -19 Tracking evolutionspike NH 2COVID -19. SARS-CoV -2 genomessyndrome coronavirus 2furin cleavage site regionsvirus RNA genomes7 study participantsmutationSARS-CoV -2 exhibitselucidate coronavirus disease 2019spike NTD epitopeSARS-CoV -2 spike variantssampleSARS-CoV -2 virion surface proteinsSARS-CoV -2 passaged4 virus haplotypes
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