Shaon Sengupta

Development of circadian immune regulation in early life

This study investigates how circadian immune regulation develops during postnatal life, finding that leukocyte rhythmicity and peripheral clocks mature progressively through development.

Role of IL10 signaling in the circadian control of host response to Influenza infection

The paper investigates how IL-10 signaling interacts with circadian rhythms to influence the host response to influenza infection, finding that blocking IL-10 signaling abolishes time-of-day-specific protection.

Effect of external cues on clock-driven protection from Influenza A infection

The paper shows that disrupting light cycles during a critical window reduces time-of-day protection from influenza, but rhythmic meal timing can compensate, highlighting the role of environmental cues in immune response.

Sources of non-uniform coverage in short-read RNA-Seq data

This study investigates sources of non-uniform coverage in RNA-Seq data and finds that no single factor explains the issue, contradicting prior claims.

Identification of distinct genotypes in circulating RSV A strains based on variants on the virus replication-associated genes

The paper identifies distinct genotypes in RSV A strains by analyzing variants in replication-associated genes from sequenced samples and highlights the polymerase protein L as a robust genotyping target.

BEERS2: RNA-Seq simulation through high fidelity in silico modeling

BEERS2 simulates RNA-seq reads with high fidelity, incorporating detailed library preparation and sequencing steps, and evaluates its impact on the Salmon pseudoalignment algorithm.

Loss of Circadian Protection in Adults Exposed to Hyperoxia as Neonates

This study shows neonatal hyperoxia disrupts circadian protection from Influenza A in adulthood through lung intrinsic clock mechanisms, not viral burden.

Iso-relevance Functions - A Systematic Approach to Ranking Genomic Features by Differential Effect Size

The paper introduces a framework to rank genomic features by differential effect size, showing that pseudocounts optimize the balance between fold-change and difference sorting.