The paper expands the stdpopsim species catalog and improves genome simulations by adding non-crossover recombination and species-specific annotations, making simulations more realistic for non-model organisms.

bioRxiv · Mar 3, 2023Bioinformatics

South Asian patient population genetics reveal strong founder effects and high rates of homozygosity - new resources for precision medicine

Jeffrey D. Wall, J. Fah Sathirapongsasuti, Ravi Kr Gupta, Anamitra Barik, Rajesh Kumar, Asif Rasheed, Venkatesan Radha, Saurabh Belsare, Ramesh Menon, Sameer Phalke, Anuradha Mittal, John Z. Fang, Deepak Tanneeru, Manjari Deshmukh, Akshi Bassi, , Andrew S. Peterson

The paper characterizes the genetic structure of South Asian populations, identifies founder effects and high homozygosity, and develops a custom SNP array for genetic studies in the region.

bioRxiv · Oct 2, 2020 · PreprintGenomics

Evaluating the quality of the 1000 Genomes Project data

Saurabh Belsare, Michal Levy‐Sakin, Yulia Mostovoy, Steffen Durinck, Subhra Chaudhuri, Ming Xiao, Andrew S. Peterson, Pui–Yan Kwok, Somasekar Seshagiri, Jeffrey D. Wall

The paper assesses the quality of the 1000 Genomes Project data by comparing phased haplotypes with experimental data and finds that rare variant phasing and imputation are unreliable due to limited sample size.

BMC Genomics · Aug 15, 2019Peer-reviewedGenomics

Analysis of 100 high coverage genomes from a pedigreed captive baboon colony

Jacqueline A. Robinson, Saurabh Belsare, Shifra Birnbaum, Deborah E. Newman, Jeannie Chan, Jeremy P. Glenn, Betsy M. Ferguson, Laura A. Cox, Jeffrey D. Wall

The paper analyzes 100 high-coverage genomes from a captive baboon colony to catalog genetic variation, study ancestry, correct colony records, and investigate inbreeding effects.

Genome Research · May 1, 2019Peer-reviewedGenomics