Postdoc position to develop computational methods for COPASI

Posted on: August 31, 2022

The postdoctoral fellow in the group of Dr. Pedro Mendes will work on an NIH-funded “National Resource for Mechanistic Modeling of Cellular Systems”, which supports two widely used biochemical dynamics modeling software: COPASI and Virtual Cell. This position will work on the simulation software COPASI and will focus on parallelization of optimization algorithms in order to accelerate parameter estimation of biochemical models. The postdoctoral fellow will interact both with the COPASI development team, which includes collaborators at the University of Virginia, as well as with the developers of Virtual Cell.

The Mendes group is located in the R. D. Berlin Center for Cell Analysis and Modeling (CCAM) at UConn Health. CCAM is a multi-disciplinary research center focused on computational cell biology We occupy an award winning research building in the UConn Health campus in Farmington, Connecticut. The environment at CCAM is particularly rich in the area of computational biology with researchers with expertise in a wide range of computational modeling approaches, such as rule-based modeling, and multi-scale modeling. At the same time the close proximity to basic biological scientists and clinicians allows for a highly interdisciplinary environment with many cross-disciplinary collaborations.

Requirements: A PhD or equivalent in computational biology, computer science, mathematics, physics, or related areas. Experience of programming, with preference to C++, is essential. Knowledge of parallel programming and use of Github resources would be especially appropriate. Previous experience of using COPASI or other systems biology simulation software is desirable but not essential.

Availability: this position is available immediately and open until filled. Contact Pedro Mendes for further details.