Master Thesis - Efficient Markov Chain Monte Carlo Techniques for Studying Large-scale Metaboli[...]

Forschungszentrum Jülich GmbH; Jülich; Vor Ort; EUR 8.928 - 13.392; Vollzeit

Benefits dieser Stelle

Flexible working hours

Excellent scientific environment

Fair remuneration

Opportunity for interdisciplinary projects

Zusammenfassung

Forschungszentrum Jülich GmbH is offering a Master Thesis opportunity in Jülich focused on efficient Markov Chain Monte Carlo techniques. The project aims to develop tailored MCMC algorithms for metabolic modeling while providing a dynamic and supportive research environment.

This position allows for hands-on experience in implementing algorithms, along with valuable mentorship in interdisciplinary research. Applicants should have strong C++ and Python programming skills, along with an interest in data science and probability theory, and must be currently enrolled in a Master’s program.

Qualifikationen

• You are currently enrolled in a Masters degree and are planning your thesis.
• You are highly motivated, with an interest in probability theory, mathematics, and data science.
• Very good practical C++ and Python programming skills allow you to make your ideas happen.
• Very good command of written and spoken English (at least B2 level).
• You have strong interest in curiosity‑driven multidisciplinary research.

Aufgaben

• Develop tailored MCMC algorithms for metabolic flux inference.
• Implement algorithms in an existing C++ framework.
• Validate and benchmark the developed algorithms with a case study.

Kenntnisse

C++ Programming

Python Programming

Probability Theory

Data Science

Ausbildung

Currently enrolled in a Master's degree

Jobbeschreibung

Master Thesis - Efficient Markov Chain Monte Carlo Techniques for Studying Large-scale Metabolic Models

As a leading research institution for microbial biotechnology the Institute of Bio- and Geosciences – Biotechnology (IBG-1) focuses on the development of biotechnological processes for the sustainable bio-based production of pharmaceutical and chemical products. We investigate how microorganisms and isolated enzymes can be used to produce a variety of products from renewable raw materials. IBG-1 is a leading institution in process development for industrial biotechnology with increasingly miniaturized and automated experiments. The institute provides an excellent infrastructure for parallelized lab robotic experiments on microtiter plates. Various analytical methods are available for online and at‑line measurements. These are combined with advanced digital technologies for data analysis, modeling, experimental design and process optimization.

Your Job

Our Modeling and Simulation Group offers an interdisciplinary and agile research environment within a dynamic and diverse group. The project is an excellent example for research at the interface of computational systems biology and mathematics/statistics with a strong attitude to open research software development. Visit http://www.fz-juelich.de/ibg/ibg-1/modsim or http://github.com/modsim for more information.

Quantifying the activity of enzymes operating within the large‑scale biochemical network is a fundamental challenge in Systems Bio(tech)nology. Here, the unknown parameters must be inferred from models that are incomplete and data that involve errors. For such challenges, Bayesian analysis using Markov Chain Monte Carlo (MCMC) has become the gold standard.

For addressing high dimensional parameter inference problems with Bayesian statistics, powerful MCMC methods have been proposed, for example the MCMC differential evolution and the Riemann Manifold Langevin Monte Carlo methods. Because of the specific structure of the inference problems occurring in metabolic models, direct application of these MCMC algorithms is, however, not possible.

• In this project, you will bring MCMC methods into the setting of metabolic flux inference and, with inspiration from existing algorithms, develop tailored MCMC algorithms.
• You will implement the ensuing algorithms in an existing C++ framework, validate and benchmark them with a realistic case study.
• The main focus of the project can develop either more in the mathematical theory of MCMC, the implementation of code for the Jülich supercomputers (GPU/CPU), or be combined with a practical modeling project.

Your Profile

• You are currently enrolled in a Masters degree and are planning your thesis.
• You are highly motivated, with an interest in probability theory, mathematics, and data science.
• Very good practical C++ and Python programming skills allow you to make your ideas happen.
• Very good command of written and spoken English (at least B2 level according to the CEFR: https://go.fzj.de/languagerequirements), ideally supported by a certificate.
• You have strong interest in curiosity‑driven multidisciplinary research.

Our Benefits for You

We work on the very latest issues that impact our society and are offering you the chance to actively help in shaping the change! We support you in your work with:

• Meaningful tasks: Your thesis deals with a future‑oriented, socially relevant topic with direct practical relevance in an international environment.
• Practical relevance: With us, you will gain valuable practical experience alongside your studies and actively participate in interdisciplinary projects.
• Scientific environment: You can expect excellent scientific equipment, modern technologies, and qualified support from experienced colleagues.
• Personal responsibility: You organize your tasks independently—from preparation to implementation.
• Onboarding & teamwork: You can look forward to working in a dedicated, international, and collegial team. It is important to us that you quickly settle into the team and are given structured training for your tasks. We also support you from the very beginning and make your start easier with our Welcome Days and Welcome Guide.
• Work‑life balance: We offer flexible working hours to help you balance your professional and personal life. You also have the option of flexible working (in terms of location), which is generally possible after consultation and in line with upcoming tasks and on‑site appointments.
• Flexibility: Flexible working hours make it easier for you to balance work and study.
• Campus experience: Our research campus in the countryside creates ideal conditions for collegial exchange and sporting activities right on site. Our cafeteria offers a wide range of options—you can enjoy a relaxing lunch break with a lake view.
• Fair remuneration: We will pay you a reasonable remuneration for your thesis.

In addition to exciting tasks and a collegial working environment, we offer you much more: https://go.fzj.de/benefits

We welcome applications from people with diverse backgrounds, e.g. in terms of age, gender, disability, sexual orientation / identity, and social, ethnic and religious origin. A diverse and inclusive working environment with equal opportunities in which everyone can realize their potential is important to us.

The following links provide further information on diversity and equal opportunities: https://go.fzj.de/equality and on specific support options: https://go.fzj.de/womens-job-journey

Place of Employment: Jülich

Start Date: To the next possible date

Salary: We will pay you a reasonable remuneration for your thesis

Application Deadline: The position is advertised until it is successfully filled.