Teaching

We offer courses and training in bioinformatics, computer science, and computational systems chemistry.

Winter Semester 2023/2024

  • 1. Strukturiertes Programmieren


    Vorlesung: Prof. Dr. Peter Dittrich
    Montag, 10:15h - 11:45h; SR 317 CZ3 &
    Mittwoch, 10:15h - 11:45h; SR 113 CZ3
    Beginn: 16.10.2023

    Praktikum: Prof. Dr. Peter Dittrich
    1. Gruppe: 12:15h - 13:45h; LinuxPool 2 EAP2
    2. Gruppe: 14:15h - 15:45h; LinuxPool 2 EAP2
    Beginn: 17.10.2023

  • 2. Grundlagen der Systembiologie

    Vorlesung: Prof. Dr. Peter Dittrich
    Montag, 14:15h - 15:45h
    Ort: SR 3517, EAP2
    Beginn: 16.10.2023

    Übung: Prof. Dr. Peter Dittrich
    Mittwoch, 12:15h - 13:45h
    Ort: SR 023; AB4
    Beginn: 18.10.2023

  • 3. Systembiologie (MMLS.G2)

    Vorlesung: Prof. Dr. Peter Dittrich
    Dienstag, 16:15h - 17:45h
    Ort: kleiner HS, Erbertstr.
    Beginn: 17.10.2023


  • 4. Literaturseminar - biologische Information


    Seminar: Prof. Dr. Peter Dittrich
    Freitag, 14:15h - 15:45h
    Ort: SR 3517  EAP2
    Beginn: 20.10.2023

Ideas for Thesis

  • Virus Dynamics
    • Integrated Model of Virus Dynamics and Social Dynamics
    • A Tool for Comparing (Virus-) Dynamical Models using Chemical Organizations
  • Chemical Organization Theory & Origin of Life
    • Measuring Chemical Organizations
    • Detecting Autocatalytic Processes in Complex Chemical Soups
    • Study Structure of Autocatalytic Networks with Structure-Function Mapping
    • Evolvability of Self-Sustaining Autocatalytic Networks
    • Generalized Autocatalytic Networks with Graph Grammars
  • Code Biology and Theory of Semantic Information
    • Measuring Semantic Capacity in Real Chemistries
    • Finding Molecular Codes in Large Reaction Networks
  • Evolution of Novelties
    • Evolutionary Motives in Evo-Devo
  • SR-Sim : Rule-based modeling in space
    • SRSim Topic: A parallel Version (in C++) of the rule-based spatial simulator SRSim
    • SRSim Topic: Demonstrate phase-separation in SRSim
  • Genetic Programming
    • Genetic Programming:  Self-modifying Genetic Programming
    • Iterated Mutual Observation with Genetic Programming
  • Systems Biology
    • Chemical Organizations in Whole Cell Modells
    • Systems Biology of Meiosis
  • Computational Social Science
    • Reveal autopoietic structures in social communication systems
    • Iterated mutual observation - double contingency problem
  • Bio-Sensors and Bio-Robotics
    • Modelling and Simulation of Bio-Sensors, e.g., cancer marker diagnostics (NEW, with IMMS)
  • Available Hardware
    • Standard computer science environment (desktop computers, printing, office space, SSD-based file server & backup, library)
    • For computing a local batch system with approx. 20 CPUs for exclusive use
    • One machine with 16 cores (2 CPUs) and 384 GB RAM for exclusive use
    • 3D-printer (Ultimaker), HTC vive (for virtual reality)
    • potentially access to a shared central compute cluster (ARA cluster, approx. 200 CPUs and 2000 cores)
Information

Students who are interested in doing a research project with us can request a detailed list of topics from peter.dittrich@uni-jena.de or by telephone on 03641 946460.

For a research internship with a small scope (about 6 ECTS = 180 hours = 4.5 weeks) or the project module, the question and task must be clearly simplified and delimited in advance.