The paper assesses how diet-derived microbial metabolites affect stress-responsive gene expression in germ-free zebrafish, finding that metabolites mitigate stress-induced bdnf expression.

bioRxiv · May 7, 2026 · PreprintDevelopmental Biology

GWAS SVatalog: a visualization tool to aid fine-mapping of GWAS loci with structural variations

Shalvi Chirmade, Zhuozhi Wang, Scott Mastromatteo, Eric Sanders, Bhooma Thiruvahindrapuram, Thomas Nalpathamkalam, Giovanna Pellecchia, Lin Fan, Katherine Keenan, Rohan V. Patel, Wilson W. L. Sung, Delnaz Roshandel, Joe Whitney, Sana Allana, Julie Avolio, , Lisa J. Strug

GWAS SVatalog identifies structural variations linked to GWAS loci by visualizing LD between SVs and SNPs across 14,479 phenotypes.

Heredity · Nov 7, 2025Peer-reviewedBioinformatics

Beyond reference bias: Making pangenomes accessible with PangyPlot

Scott Mastromatteo, Shalvi Chirmade, Delnaz Roshandel, Bhooma Thiruvahindrapuram, Zhuozhi Wang, Rohan V. Patel, Wilson W. L. Sung, Atieh Hajianpour, Cheng Wang, Lin Fan, Katherine Keenan, Julie Avolio, Paul D. W. Eckford, Felix A. Ratjen, Lisa J. Strug

PangyPlot is a genome browser that simplifies exploration of pangenome graphs, enabling visualization of genetic variation in populations with diverse haplotypes.

bioRxiv · Oct 31, 2025 · PreprintGenomics