cv
General Information
| Full Name | Batuhan Kav |
| Languages | Turkish (Native), English (Professional), German (Advanced) |
Education
-
2015 - 2019 PhD in Theoretical Biophysics
Max Planck Institute of Colloids and Interfaces, Potsdam, Germany -
2013 - 2015 MSc in Physics
Koç University, Istanbul, Turkey -
2009 - 2013 BSc in Chemistry
Bilkent University, Ankara, Turkey
Experience
-
03.2026 - Present Principle Machine Learning Engineer
Oculera Health, Remote - Building robust and scalable data pipelines — Designing and maintaining end-to-end data infrastructure for clinical VR datasets, spanning ingestion, validation, versioning, and serving layers across multi-regional deployments.
- Developing machine learning models — Researching and implementing models for eye-tracking signal processing and clinical screening applications, including time-series classification, self-supervised learning, and psychometric score derivation from raw biometric data.
- Implementing internal AI tools — Building knowledge graph systems, deep research pipelines, and autonomous data science agents to accelerate clinical research workflows and reduce manual analytical overhead.
- Developing the scientific product strategy — Owning the full arc from research conceptualization and study design through regulatory-aware productionisation, bridging clinical science and engineering stakeholders.
-
06.2025 - 03.2026 Intentional Career Break
- Open-source project development in AI4Science
- Agentic AI and knowledge graphs
-
2022 - 2025 Machine Learning Engineer
ariadne.ai GmbH, Heidelberg, Germany - Led research and development for biomedical imaging and spatial data analysis, resulting in three different features offered as part of company's SAAS.
- Developed robust object (cell and tissue) segmentation models using deep neural networks, significantly reducing project delivery times.
- Led internal and customer projects involving statistical modeling of high-dimensional image data.
-
2019 - 2022 Postdoctoral Researcher
Forschungszentrum Jülich, Jülich, Germany (with Prof. Birgit Strodel). - Main focus on understanding the structure and aggregation dynamics of the intrinsically disordered proteins related to the neurodegenerative diseases.
- Developed a virtual drug discovery data pipeline for compounds preventing disordered protein aggregation.
- Developed machine learning methods for molecular dynamics force field development.
- Investigated the effect of mutations in protein sequences and their relevance for renal diseases.
-
2015 - 2019 PhD Student
Max Planck Institute of Colloids and Interfaces, Potsdam, Germany (with Dr. Thomas Weikl and Prof. Dr. Emanuel Schneck). - Investigated the role of membrane-embedded small sugar molecules in facilitating membrane adhesion using molecular dynamics simulations.
- Developed a full-atomistic molecular dynamics force field to accommodate different water types.
- Developed statistical methods for predicting the forces between small sugar molecules during binding.
Open Source Projects
-
2020 - Present NMRLipids (FAIRMD) Project
- Core designer and developer of the open-source NMRLipids databank for molecular dynamics simulation data. Currently it is the world's largest open databank on lipids.
-
2025 - Present scikit-mol
- Contributor to a project aiming to seamlessly combine machine learning library scikit-learn and cheminformatics library RDKit to streamline machine learning workflows for cheminformatics.
-
2025 - Present IDPdatabank
- Core designer and developer of the open-source IDPDatabank that can be used to validate classical and generative AI structure predictions.
Computer Skills
-
Languages
- Python, TypeScript/JavaScript
-
ML/AI Frameworks
- PyTorch, PyTorch-geometric, scikit-learn, LangChain, LangGraph
-
Python Libraries
- numpy, scikit-image, OpenCV, Pandas, RDKit, squidpy, Polars
-
Cloud
- AWS, GCP
-
Version Control
- git
-
Databases
- SQL
-
ML/Dev-Ops
- MLFlow, Docker
-
Molecular Dynamics and Docking
- AMBER, Gromacs, OpenMM, Autodock Vina