Postdoctoral Researcher

Workplace:

The Agmon Lab, part of the Center for Cell Analysis and Modeling at UConn Health, is dedicated to advancing computational biology by developing comprehensive computational models for understanding cellular behavior at multiple levels. Our projects range from the molecular basis of cellular processes to the intricate dynamics within microbial communities, supported by our open-source platform, Vivarium. For more information about our lab and projects, visit This role involves a significant collaboration with Basis ), a leading applied AI research organization in NYC/Boston, aimed at integrating artificial intelligence with biological research to tackle complex biological problems. As a vital part of this collaboration, the candidate will have the opportunity to travel to Basis's offices, engaging directly with their team of experts.

Project Description:

We are starting a project aimed at revolutionizing our approach to identifying missing or unknown gene functions using whole-cell models, particularly focused on extending an established whole-cell model of E. coli . By integrating whole-cell modeling with a modular simulation platform and a probabilistic inference workflow, we aim to automate the discovery and curation of gene functions. This project will enhance the predictive accuracy of the E. coli model under various conditions, leveraging extensive datasets and high-performance computing resources for simulation and analysis.

Job Description:

We seek a highly motivated Postdoctoral Researcher to lead this groundbreaking project. The ideal candidate will have a robust background in probabilistic modeling, simulation, and computational biology, with a passion for solving complex biological questions. This role involves generating and analyzing thousands of E. coli model variants, using advanced computational techniques to infer and curate new gene functions. This work will refine the model's predictive capability across numerous conditions. It will require travel to Basis in NYC/Boston for collaboration on the inference engine - see Basis's job description here:

Requirements:
PhD in Computational Biology, Bioinformatics, Systems Biology, Applied Mathematics, or a related field.Proven experience with probabilistic modeling, simulation, and data analysis.Strong programming skills, preferably in Python.Familiarity with whole-cell modeling, high-performance computing, and bioinformatics databases is a plus.Excellent communication and collaboration skills, including the ability to work effectively with the Basis team.

Responsibilities:
Develop and implement the simulation-based inference workflow for gene function discovery.Conduct simulations of E. coli variants, analyze results, and integrate findings to enhance the model.Collaborate closely with the Basis team and research teams to intake experimental data and validate model predictions.Publish findings in high-impact journals and present at international conferences.

Benefits:
Competitive salary with comprehensive medical and dental insurance.Access to state-of-the-art computational resources and collaboration with leading researchers in the field.Opportunity to contribute to groundbreaking research.Flexible work schedule and a supportive, inclusive lab environment.Collaboration with BasisVery competitive salary

Availability:

This position is available with a starting date in summer 2024. For further details or to apply, please contact Dr. Eran Agmon at

---