Fiches de cours

Synthetic biology

BIOENG-320

Enseignant(s) :

Barth Patrick Daniel
Hatzimanikatis Vassily

Langue:

English

Summary

This course will cover fundamentals and approaches at the interface of biology, chemistry, engineering and computer science for the design of biological systems at both theoretical and practical levels. The principal techniques used in diverse fields of synthetic biology will be introduced.

Content

 

  1. Genome engineering: recent advances in genome editing technologies using the CRISPR/Cas system, their application in cell engineering and biomedicine, and future challenges will be introduced.
  2. Gene network & metabolic pathway engineering: Methods for reconstructing metabolic networks from genome annotation. Computational approaches for synthetic metabolism and design of metabolic pathways.
  3. Protein engineering: state of the art computational and experimental approaches to protein design, their application to the engineering of novel molecular tools for synthetic biology (e.g. biocatalysts) and biomedicine (e.g. biosensors for cancer immunotherapies) will be covered.
  4. Chemical biology engineering: this component will focus on cutting-edge chemical biology tools that address pressing problems in human health—from identifying druggable molecular targets and novel mechanism-of-action, to engineering modern small-molecule-based targeted therapies.
  5. Signalling pathways and cell engineering: recent progress and challenges in the rational design of signaling pathways toward the reprogramming of cellular functions in diverse cell types including bacteria, yeast and vertebrate cells will be discussed.

    Keywords

    Gene networks, metabolic pathways, biological circuits, chemical biology engineering, protein design, cell engineering, genome engineering, computer simulation.

    Learning Prerequisites

    Recommended courses

    Basic bachelor courses of Mathematics, Physics, Molecular Biology, Biochemistry, Chemical Biology, Computer programming

    Important concepts to start the course

    Gene expression & regulation, cell metabolism, chemical & structural biology of proteins, enzyme catalysis, biomolecular sensing, thermodynamics, kinetics, numerical analysis, informatics, signal processing

    Learning Outcomes

    By the end of the course, the student must be able to:

    Transversal skills

    Teaching methods

    Half of the course is based on lectures, while in the other half exercises, projects (computational) are provided to the students

    Expected student activities

    Attending lectures, completing exercises, reading assignments, presenting a scientific paper, doing a project, writing a report, presenting the results of a project

    Assessment methods

    Written exam during the exam session, exercises, (graded) mini project

    Supervision

    Office hours Yes
    Assistants Yes
    Forum Yes

    Resources

    Bibliography

    Synthetic Biology: Parts, Devices and Applications (Eds: Christina Smolke Sang Yup Lee Jens Nielsen Gregory Stephanopoulos) 2018 Wiley‐VCH Verlag GmbH & Co. KGaA

    Systems Biology: Simulation of Dynamic Network States 1st Edition (by Bernhard Palsson) 2011 Cambridge University Press

    Systems Biology: A Textbook 2nd Edition (by Edda Klipp, Wolfram Liebermeister, Christoph Wierling, Axel Kowald) Wiley-Blackwell; 2 edition (June 27, 2016)

    Dans les plans d'études

    Semaine de référence

     LuMaMeJeVe
    8-9     
    9-10     
    10-11     
    11-12     
    12-13     
    13-14     
    14-15     
    15-16     
    16-17     
    17-18     
    18-19     
    19-20     
    20-21     
    21-22     
    En construction
     
          Cours
          Exercice, TP
          Projet, autre

    légende

    • Semestre d'automne
    • Session d'hiver
    • Semestre de printemps
    • Session d'été
    • Cours en français
    • Cours en anglais
    • Cours en allemand