Sunando Roy

This study compares metagenomics and targeted approaches for virus detection, finding that targeted methods improve sensitivity while untargeted ONT offers better specificity.

The paper shows that HIV-positive mothers have compartmentalized CMV genotypes, with three infants transmitting a single closely related maternal cervix strain, and identifies gene similarities linked to tissue-tropism and immunomodulation.

This paper introduces HaROLD, a method for haplotype reconstruction from longitudinal viral sequencing data using co-varying variant frequencies, showing high accuracy with synthetic datasets.

Three multiplex tiling protocols using a single primer set recover long amplicons of SARS-CoV-2 directly from clinical sample total RNA for sequencing on Nanopore, Illumina, or Sanger platforms.