Dynamic signalling
ODE-based representations of phosphorylation, regulatory networks and time-resolved molecular responses.
Computational Systems Biologist
Abhinav Mishra
Mechanistic models and scientific software for signalling dynamics, multi-omics and drug response.
I combine mathematical modelling, optimization, Bayesian inference and reproducible scientific computing to study dynamic biological systems, particularly cancer signalling, treatment response and pharmacological processes.
Research focus
From biological mechanism to reproducible computation
Cancer & drug response
Mechanistic models of treatment response, pharmacokinetics and coupled biological dynamics.
Multi-omics inference
Optimization and Bayesian approaches for extracting dynamic structure from proteomic and molecular measurements.
Research software
Testable packages, interoperable models and portable workflows that make computational analyses reusable.
Questions driving my research
Problems I want to understand
- How can sparse longitudinal omics measurements constrain mechanistic models without hiding uncertainty?
- How can signalling-network dynamics be inferred when prior knowledge and measurements are incomplete?
- How can mechanistic and statistical models remain interoperable, inspectable and reproducible?
- How can molecular perturbations be connected quantitatively to treatment-response dynamics?
Selected work
A connected modelling portfolio
PhosKinTime
Flagship ResearchMechanistic framework for reconstructing phosphorylation dynamics from time-resolved molecular measurements and kinase–substrate networks using ODE models, constrained optimization and sensitivity analysis.
Methods ODE modelling · constrained optimization · sensitivity analysis
PhosCrosstalk
Active ResearchSystems-level phospho-network modelling that integrates post-translational crosstalk, kinase–substrate networks and phosphosite time series with multi-objective evolutionary optimization.
Methods ODE networks · PTM crosstalk · multi-objective optimization
Tirzepatide PBPK model
Research ModelSBML-based ordinary differential equation model of tirzepatide absorption, distribution and elimination, developed as a reproducible pharmacokinetic modelling study.
Methods PBPK · ODEs · SBML · parameter estimation
Allen–Cahn tumour growth model
Research SoftwareJAX-based simulation of a non-isothermal Allen–Cahn tumour-growth model coupling cell, temperature and nutrient dynamics with spectral or finite-difference solvers.
Methods PDEs · JAX · spectral methods · finite differences
Working approach
A traceable path from question to output
- 01Biological question
- 02Mathematical representation
- 03Numerical solution
- 04Optimization & inference
- 05Interpretation
- 06Reproducible output