Sai Manasa C.

Tools and Automation

• Model Translation Automation: Automated SBML-to-RxODE2 conversion pipelines for PK/PD models, reducing manual effort and standardizing workflows; the pipeline supports future VPOP integration.
• Bioanalytical assay data processing and automation: Developed a semi-automated MATLAB-based pipeline for MSD assay data processing, handling variable dataset layouts and study designs; implemented dynamic scripting logic for optimal dilution-factor and concentration selection; generated cleaned datasets and Dotmatics-ready files including PK concentration curves, while also identifying and imputing missing metadata essential for analysis; delivered Dotmatics-ready PK profiles with 1-2 day turnarounds contributing to strong client satisfaction and reliability.
• NLP-driven database explorer: Developed a searchable parameter dashboard explorer for Moderna using Shiny for Python, employing NLP and fuzzy matching to enable intuitive querying of large model parameter sets and enhance stakeholder knowledge retrieval.
• Cross-platform simulation tool : Designed and implemented an R Shiny interface atop an IBD platform model in MATLAB SimBiology, allowing users to input standard-of-care or custom dosing regimens (e.g., cytokine synthesis rate adjustments) and visualize downstream PK/PD outputs (cytokines, FCP, CRP) in real time via bidirectional communication between R and MATLAB; presented at PAGE 2025 to enhance stakeholder engagement and facilitate mechanistic hypothesis exploration.
• Cross-Functional initiatives: Planned and executed non-modeling technical initiatives, developed internal tools to drive process improvements and knowledge sharing.

Modeling and Simulation

• siRNA QSP model Development: Expanded and recalibrated a published semi-mechanistic QSP framework (Ayyar et al., 2021) to create a unified PK/PD modeling platform for five siRNA drugs; supported dose selection, target prioritization, and compound design decisions; presented outcomes at PAGE 2025 and ACCP 2025.
• Ophthalmology modeling support: Executed PK/PD simulations and optimization routines for an ophthalmology platform model; generated cohort and virtual population scenarios; prepared comprehensive slide decks for client presentations; consolidated and communicated multi-threaded results to guide and support decision-making.
• Omics & ML analysis: Conducted multi-omics using supervised ML techniques and causal network integration to identify mechanistic biomarkers for preterm birth.