300095 VU Metabolic network reconstruction and analysis (2023S)

Prüfungsimmanente Lehrveranstaltung

Moodle

An/Abmeldung

Hinweis: Ihr Anmeldezeitpunkt innerhalb der Frist hat keine Auswirkungen auf die Platzvergabe (kein "first come, first served").

Anmeldung von Do 09.02.2023 08:00 bis Do 23.02.2023 18:00
Abmeldung bis Mi 15.03.2023 18:00

Details

max. 25 Teilnehmer*innen

Sprache: Englisch

Lehrende

Steffen Waldherr

Termine (iCal) - nächster Termin ist mit N markiert

    
    Donnerstag
    02.03.
    09:45 - 11:15
    Seminarraum 1.2, Biologie Djerassiplatz 1, 1.004, Ebene 1
    
    Donnerstag
    09.03.
    09:45 - 11:15
    Seminarraum 1.2, Biologie Djerassiplatz 1, 1.004, Ebene 1
    
    Donnerstag
    16.03.
    09:45 - 11:15
    Seminarraum 1.2, Biologie Djerassiplatz 1, 1.004, Ebene 1
    
    Donnerstag
    23.03.
    09:45 - 11:15
    Seminarraum 1.2, Biologie Djerassiplatz 1, 1.004, Ebene 1
    
    Donnerstag
    30.03.
    09:45 - 11:15
    Seminarraum 1.2, Biologie Djerassiplatz 1, 1.004, Ebene 1
    
    Donnerstag
    20.04.
    09:45 - 11:15
    Seminarraum 1.2, Biologie Djerassiplatz 1, 1.004, Ebene 1
    
    Donnerstag
    27.04.
    09:45 - 11:15
    Seminarraum 1.2, Biologie Djerassiplatz 1, 1.004, Ebene 1
    
    Donnerstag
    04.05.
    09:45 - 11:15
    Seminarraum 1.2, Biologie Djerassiplatz 1, 1.004, Ebene 1
    
    Dienstag
    09.05.
    13:15 - 16:30
    Seminarraum 1.1 PC, Biologie Djerassiplatz 1, 1.003, Ebene 1
    
    Donnerstag
    11.05.
    09:45 - 11:15
    Seminarraum 1.2, Biologie Djerassiplatz 1, 1.004, Ebene 1
    
    Donnerstag
    25.05.
    09:45 - 11:15
    Seminarraum 1.2, Biologie Djerassiplatz 1, 1.004, Ebene 1
    
    Mittwoch
    31.05.
    13:15 - 16:30
    Seminarraum 1.1 PC, Biologie Djerassiplatz 1, 1.003, Ebene 1
    
    Donnerstag
    01.06.
    09:45 - 11:15
    Seminarraum 1.2, Biologie Djerassiplatz 1, 1.004, Ebene 1
    
    Mittwoch
    07.06.
    13:15 - 16:30
    Seminarraum 1.1 PC, Biologie Djerassiplatz 1, 1.003, Ebene 1
    
    Donnerstag
    15.06.
    09:45 - 11:15
    Seminarraum 1.2, Biologie Djerassiplatz 1, 1.004, Ebene 1
    
    Mittwoch
    21.06.
    13:15 - 16:30
    Seminarraum 1.1 PC, Biologie Djerassiplatz 1, 1.003, Ebene 1
    
    Donnerstag
    22.06.
    09:45 - 11:15
    Seminarraum 1.2, Biologie Djerassiplatz 1, 1.004, Ebene 1
    
    Donnerstag
    29.06.
    09:45 - 11:15
    Seminarraum 1.2, Biologie Djerassiplatz 1, 1.004, Ebene 1

Information

Ziele, Inhalte und Methode der Lehrveranstaltung

The course introduces students to the construction and analysis of metabolic network models for predicting metabolic fluxes from gene sequence data. Such models can be used to predict substrate uptake and secretion rates as well as biomass growth rates for many organisms using simple gene-reaction mappings.

Learning objectives

The students will know which information is contained in metabolic network models and what they can be used for.
They will be able to perform a basic computational analysis of such models, and will be able to use them for the prediction of metabolic fluxes with constraint- and optimization-based methods.
They can construct metabolic network models from genetic sequence data and suitable enzyme/reaction databases with suitable software tools.

Contents

Structure and properties of metabolic network models
Working with metabolic network models: flux balance analysis, flux variability analysis
Genome-scale models
Reconstruction of models from genetic data

Art der Leistungskontrolle und erlaubte Hilfsmittel

- Written exam (50%)
- Solutions of computer exercises (50%)

Mindestanforderungen und Beurteilungsmaßstab

All partial evaluations must be positive to pass the course. Minimum score to pass is 50% in total.

Prüfungsstoff

In the exam, students need to show that they are able to constructively apply and discuss the methods taught in the course.

Literatur

Bernhard O. Palsson: Systems Biology. Constraint-based Reconstruction and Analysis. Cambridge University Press, 2015
Costas D. Maranas, Ali R. Zomorrodi: Optimization Methods in Metabolic Networks. John Wiley & Sons, 2016

Zuordnung im Vorlesungsverzeichnis

MES3, M-WZB, MEC-9, MBO 7

Letzte Änderung: Fr 05.05.2023 09:28