Computational Biophysics & Therapeutic Design
Independent research in computational biophysics and condition-responsive therapeutic design.
Designing intelligent biological systems through rigorous multi-scale simulation and physical chemistry principles — focusing on therapeutics that dynamically adapt to disease microenvironments.
Proposed activated state (pH 6.8) vs proposed quiescent state (pH 7.4)
Featured Research
Condition-Responsive Therapeutic
MACS: Modular Activated Cancer Suppressor
A single-mRNA-encoded multi-domain protein system with acidic microenvironment-responsive logic gating.
MDX-1
Domain-Specific Architecture
MDX: Molecular Dynamics Accelerator
A correctness-first, pre-silicon domain-specific accelerator architecture for classical MD workloads.
Research Pillars
Computational Structural Biology
Atomistic molecular dynamics, conformational analysis, and structure-function relationships in engineered protein systems.
Condition-Responsive Therapeutics
Design principles for biotherapeutics that discriminate between healthy and diseased microenvironments through physicochemical gating.
Scientific Computing & Accelerator Architecture
Correctness-first reference models and domain-specific architectures for molecular-dynamics and scientific-computing workloads.
Selected Reports & Documents
| Document Title | Project | Type | Date | Access |
|---|---|---|---|---|
| MACS Mechanistic Evidence Summary | MACS | Technical Report | 2026 | Read document → |
| MACS Methodological Decision Log | MACS | Technical Documentation | 2026 | Read document → |
| MACS Mechanistic Evidence Matrix | MACS | Technical Documentation | 2026 | View matrix → |
| MDP Consistency Report | MACS | Technical Documentation | 2026 | Read report → |
Inventions & Patents
Modular Synthetic Transmembrane Biological System Enabling Conditional Activation and Protein Degradation Based on Molecular Marker Density
National Patent Application Filed- Jurisdiction
- Turkey (TURKPATENT)
- Inventor
- Selman Ali Dokumacı
Publicly available filing information. Details omitted pending publication.
About
Independent researcher focusing on computational biophysics and molecular engineering.
Current work centers on designing condition-responsive protein systems using atomistic simulation, elastic network analysis, and thermodynamic modeling.
Research conducted independently, with computational resources including local GPU workstations and high-performance computing access.
Contact
For academic collaboration, research inquiries, or professional communication, reach out through the following channels:
Note: Research-related inquiries are prioritized. LinkedIn is recommended for initial contact.