Vishal Sarsani

Stress testing reveals selective vulnerabilities in protein homeostasis

The paper uses transposon sequencing to identify stress-specific vulnerabilities in protein homeostasis by analyzing gene fitness under proteotoxic stresses in bacteria.

Discovering Genetic Modulators of the Protein Homeostasis System through Multilevel Analysis

The paper uses transposon mutagenesis and computational analysis to identify genetic modulators of protein homeostasis in Caulobacter crescentus, finding limited overlap in essential genes across environmental and genetic perturbations.

Mechanisms driving epigenetic and transcriptional responses of microglia in a neurodegenerative lysosomal storage disorder model

This study investigates how lysosomal dysfunction in microglia drives epigenetic and transcriptional changes in a mouse model of Sanfilippo syndrome, revealing shared mechanisms with Alzheimer's disease.

A multi-ancestry genome-wide meta-analysis, fine-mapping, and target gene prioritization to characterize the genetic architecture of adiponectin.

This study performs a multi-ancestry GWAS for adiponectin, identifies 22 loci, and prioritizes target genes using GPScore, revealing novel genes and pathways involved in metabolic regulation.

RNA Immunoprecipitation and Sequencing of Isolated RNAs (RIP-SIR) Identifies Endogenous miRNA-Target Interactions

The paper introduces RIP-SIR, a method to identify endogenous miRNA-target interactions across tissues and cell types.

Model-based identification of conditionally-essential genes from transposon-insertion sequencing data

The paper introduces a model-based method to identify conditionally-essential genes using transposon-insertion sequencing data, finding a set of genes essential under specific stress conditions in Caulobacter crescentus.

A Bayesian Nonparametric Model for Inferring Subclonal Populations from Structured DNA Sequencing Data

This paper introduces a Bayesian nonparametric model to infer subclonal populations from structured DNA sequencing data, showing improved performance over existing methods.

SCSIM: Jointly simulating correlated single-cell and bulk next-generation DNA sequencing data

SCSIM simulates correlated single-cell and bulk DNA sequencing data for testing variant callers and analysis tools.

Bioinformatics workflows for genomic analysis of tumors from Patient Derived Xenografts (PDX): challenges and guidelines

The paper develops bioinformatics workflows to analyze genomic data from patient-derived xenografts, addressing challenges like separating mouse and human reads and identifying somatic mutations without paired normal DNA.

The genome of C57BL/6J \"Eve\", the mother of the laboratory mouse genome reference strain

The paper generates a new de novo genome assembly for C57BL/6J Eve, addressing genetic drift in the reference strain and improving genomic accuracy.

Genome assembly and gene expression in the American black bear provides new insights into the renal response to hibernation.

This study identifies 169 differentially expressed genes in black bear kidneys during hibernation, highlighting potential mechanisms for avoiding kidney damage.