Jayajit Das

The paper uses nonlinear mixed-effects modeling to study synergy between immune checkpoint and thrombin inhibitors in a mouse colon cancer model, identifying mechanisms like CD8+ T cell expansion.

The paper develops a multiscale computational model to predict CD33 CAR-NK cytotoxicity against various target cells using experimental data and flow cytometry.

The paper develops a stochastic model to predict T cell clone size distributions in brain tumors and finds faster proliferation in metastases and stronger responses to shared neoantigens.

The paper shows that spatial statistics of submicron NKR clusters in resting NK cells affect early signal discrimination between healthy and diseased targets.

The paper introduces an entropy-based method for model selection using time-stamped snapshot data, demonstrating its ability to identify the correct mechanistic model from simulated data.

This study shows that SYK negatively regulates NK cell signaling and that its deletion enhances CD19-CAR NK cell efficacy in cancer immunotherapy.

This study shows that NK cell receptor signaling and activation vary with cell cycle stages, with some proteins showing non-monotonic abundance changes.

The paper assesses the impact of IL-21 on NK cell proliferation and function using mathematical and functional approaches, finding synergy between STAT3 and NF-κB and optimal IL-21 use in the priming phase.

The paper examines spatial fencing patterns of tumor cells by immune and non-immune cells in solid cancers and links these patterns to cancer progression and treatment response.

The paper develops a spatially resolved model to show how immune cell organization and dynamics influence response to immune checkpoint inhibitors in melanoma patients.

BioNetGMMFit estimates parameters of BioNetGen models from time-stamped single-cell data and provides confidence intervals for improved accuracy.

McSNAC approximates first-order signaling networks from mass cytometry data and shows accuracy in reconstructing models and predicting perturbation outcomes.

This paper develops a framework called PASCAR to systematically explore CAR-T cell design space using multiscale models and optimization, showing intermediate CAR affinities reduce healthy cell lysis while maintaining tumor cell killing.

This paper applies persistent homology to cytometry data to identify structural differences between healthy donors and COVID-19 patients, revealing downregulation of T-bet and Eomes in patient non-naive CD8+ T cells.

The paper improves parameter estimation in biochemical models using GMM and PSO on single-cell data, showing better results than traditional methods.

The paper develops an in silico model to study NKG2D signaling kinetics in NK cells, showing that co-clustering of NKG2D and Vav1 enhances phospho-Vav1 production and influences activation.

The paper uses mathematical modeling to show that adaptive immunity significantly reduces RSV titer in cotton rats, with key kinetic features observed in both in vitro and in vivo experiments.