Roy D. Dar

Variational Autoencoder-enabled High-throughput Drug Screening for HIV Latency Modulators predicted through Noise in Gene Expression

This study uses a variational autoencoder to screen ~175,000 compounds for HIV latency modulators, identifying 16 LRAs and 2 LPAs with a 15.9% experimental hit rate.

Monocyte to macrophage differentiation and changes in cellular redox homeostasis promote cell type-specific HIV latency reactivation

This study shows that monocyte-to-macrophage differentiation and redox changes influence HIV latency differently in cell types, with macrophages being more responsive to redox modulators.

Relative stability of mRNA and protein severely limits inference of gene networks from single-cell mRNA measurements

The paper shows that the relative stability of mRNA and protein limits gene network inference from single-cell RNA data, using synthetic and real yeast data.

Topological Constraints on Noise Propagation in Gene Regulatory Networks

The paper analyzes how gene regulatory network topology influences noise propagation, identifying conditions for noise reduction in ring networks and proposing a framework using graph theory and stochastic processes.

Internetwork connectivity of molecular networks across species of life

The paper investigates the connectivity between transcriptional regulatory and protein-protein interaction networks across five eukaryotic species, revealing conserved design principles and their impact on network robustness.

Transcriptional bursting explains the noise-versus-mean relationship in mRNA and protein levels

The paper re-examines HIV LTR mRNA and protein expression data, finding that noise scales inversely with mean expression, supporting the inverse correlation between noise and mean.