R. Chowdhury

Reinforcement learning-guided control strategies for CAR T-cell activation and expansion: Simulation study with a virtual cell culture environment

This paper uses reinforcement learning to optimize CAR-T cell activation and expansion in a simulated cell culture environment, showing that PPO-tabular performs best for this task.

Multi-organ Metabolic Model of Zea mays Connects Temperature Stress with Thermodynamics-Reducing Power-Energy Generation Axis

This study constructs a multi-organ maize metabolic model to analyze temperature stress responses, identifying a thermodynamics-reducing power-energy generation axis that differentiates heat and cold stress.

Molecular imaging with aquaporin-based reporter genes: quantitative considerations from Monte Carlo diffusion simulations

The paper develops a Monte Carlo model to quantify aquaporin-based imaging signals and demonstrates a method to improve specificity by analyzing time-dependent diffusivity changes.

Primed to resolve: A single cell atlas of the shoulder capsule reveals a cellular basis for resolving inflammatory fibrosis

This study identifies MERTK+ macrophages and fibroblasts involved in resolving fibrosis in frozen shoulder using single-cell analysis and suggests therapeutic strategies to enhance their interaction.

Modeling the Sequence Dependence of Differential Antibody Binding in the Immune Response to Infectious Disease

The paper trains a neural network to model antibody binding to peptide sequences, improving disease classification accuracy by incorporating sequence information into the analysis.

Visualizing proteins by expansion microscopy

This paper introduces ONE microscopy, a technique that enables nanoscale imaging of single proteins and molecular complexes, revealing structural details in cells and disease samples.

A CNN model for predicting binding affinity changes between SARS-CoV-2 spike RBD variants and ACE2 homologues

The paper introduces a CNN model to predict RBD-hACE2 binding affinity changes for SARS-CoV-2 variants, achieving high accuracy and identifying variants with improved binding affinity.

Inactivation mechanism and efficacy of grape seed extract for Human Norovirus surrogate

This paper shows grape seed extract (GSE) is more effective than chemical disinfectants at inactivating Tulane virus, a human norovirus surrogate, by causing virus aggregation.

Oligomerization state of the functional bacterial twin arginine translocation (Tat) receptor complex

The paper determines the tetrameric structure of the Tat receptor complex in bacterial membranes using single molecule photobleaching analysis.

Comparative analysis of mandible morphology in four ant species with different foraging and nesting habits

This study compares mandible morphology and zinc content across four ant species, finding variations linked to their foraging and nesting habits.

Computational prediction of the effect of amino acid changes on the binding affinity between SARS-CoV-2 spike protein and the human ACE2 receptor

The paper predicts the effect of amino acid changes on SARS-CoV-2 spike protein binding to hACE2 using molecular dynamics and a neural network, achieving 82.2% classification accuracy and 0.69 correlation with experimental data.

In-vivo evaluation of the anti-diarrheal effect of Lactococcus lactis subspecies lactis and Lactococcus piscium isolated from yogurt.

This study isolates and evaluates Lactococcus lactis subspecies lactis and Lactococcus piscium from yogurt for their anti-diarrheal effects against castor oil-induced diarrhea in rats.

De novo design of high-affinity antibody variable regions (Fv) against the SARS-CoV-2 spike protein

This paper designs high-affinity antibodies against SARS-CoV-2 spike protein using computational methods and reports on top designs with balanced affinity and immunogenicity.

Biophysical characterization of the SARS-CoV-2 spike protein binding with the ACE2 receptor and implications for infectivity

This study computationally analyzes the binding of SARS-CoV-2 spike protein RBD to human ACE2 and related species, finding stronger binding in SARS-CoV-2 compared to SARS-CoV-1 and RaTG13, with implications for infectivity and viral origin.

Recombination and lineage-specific mutations linked to the emergence of SARS-CoV-2

This paper identifies an ancestral recombination event in the RBD of SARS-CoV and SARS-CoV-2 that increased hACE2 binding affinity, suggesting SARS-like viruses may have pandemic potential.

Electron microscopy reveals unique spore-like nano forms of Bacillus cereus

The paper uses electron microscopy to identify nano-spore-like structures in Bacillus cereus under stress, showing they can bypass sterile filtration and transform into mature cells upon nutrient supply.

Detection of acute TLR-7 agonist-induced hemorrhagic myocarditis in mice by refined multi-parametric quantitative cardiac MRI.

This study identifies hemorrhagic myocarditis in mice induced by TLR-7 agonist using multi-parametric cardiac MRI, showing distinct T1, T2, and T2* relaxation patterns.