We are looking for a highly motivated post-doctoral researcher who will work on a recently funded YOK-ADEP project on molecular dynamics simulations of Ebolavirus glycoprotein. The researcher will be mainly responsible for investigating the dynamics of GP-receptor binding mechanisms using all-atom models. Furthermore, utilizing the data obtained from simulations, they will develop a graph attention network (GAN) model. This model will be used to predict binding affinities for GP mutants associated with newly emerging variants.
Responsibilities include:
- Protocol for the complete workflow: system preparation, simulation execution, and post-simulation analysis of protein systems specifically using Gromacs
- Developing GAN models
- Preparing reports and documentation for the project
- Providing guidance to the PhD and Master's students involved in the same project
Required skills and experience:
- Previous experience with any MD software (Gromacs, Amber, NAMD, LAMMPS)
- Knowledge of protein force fields
- Familiarity with ML models
- Familiarity with Python
- Good communication and teamwork skills
- Ph.D. degree in chemistry, physics, chemical engineering, or related field
Please submit the following documents to aysenur.iscen@bogazici.edu.tr
- CV including education and work experience, list of publications, contact information of at least two (2) references
- A one-page summary of Ph.D. thesis (or relevant work completed prior to application)
