|
Size: 3953
Comment:
|
Size: 3937
Comment:
|
| Deletions are marked like this. | Additions are marked like this. |
| Line 28: | Line 28: |
| || || ||Lecture 4: Null space, subsets and elementary modes ||[[http://mudsharkstatic.brookes.ac.uk/Nottingham2022/L4.pdf|Slides]] ||CS || | || || ||Lecture: Null space, subsets and elementary modes ||[[http://mudsharkstatic.brookes.ac.uk/Nottingham2022/L4.pdf|Slides]] ||CS || |
| Line 32: | Line 32: |
| || ||PM ''' ''' ||Lecture 5. Biotechnological applications of elementary modes analysis ||[[http://mudsharkstatic.brookes.ac.uk/Nottingham2022/L5.pdf|Slides]] ||DF || | || ||PM ''' ''' ||Lecture. Biotechnological applications of elementary modes analysis ||[[http://mudsharkstatic.brookes.ac.uk/Nottingham2022/L5.pdf|Slides]] ||DF || |
| Line 36: | Line 36: |
| || ||09:00 ||Lecture 6: Linear programming and Flux Balance Analysis ||[[http://mudsharkstatic.brookes.ac.uk/Nottingham2022/L6.pdf|Slides]] ||MP || || || ||Lecture 7 : Validation and construction of models ||[[http://mudsharkstatic.brookes.ac.uk/Nottingham2022/L7.pdf|Slides]] ||TD || |
|| ||09:00 ||Lecture: Linear programming and Flux Balance Analysis ||[[http://mudsharkstatic.brookes.ac.uk/Nottingham2022/L6.pdf|Slides]] ||MP || || || ||Lecture: Validation and construction of models ||[[http://mudsharkstatic.brookes.ac.uk/Nottingham2022/L7.pdf|Slides]] ||TD || |
| Line 39: | Line 39: |
| || || ||Lecture 8: Determination of minimal media requirements for ''Campylobacter jejuni'' ||[[http://mudsharkstatic.brookes.ac.uk/Nottingham2022/L8.pdf|Slides]] ||DS || | || || ||Lecture: Determination of minimal media requirements for ''Campylobacter jejuni'' ||[[http://mudsharkstatic.brookes.ac.uk/Nottingham2022/L8.pdf|Slides]] ||DS || |
| Line 42: | Line 42: |
| || ||PM ''' ''' ||Lecture 9: ''Phaeodactylum tricornutm'' for biofuel synthesis ||[[http://mudsharkstatic.brookes.ac.uk/Nottingham2022/L9.pdf|Slides]] ||DS || | || ||PM ''' ''' ||Lecture: ''Phaeodactylum tricornutm'' for biofuel synthesis ||[[http://mudsharkstatic.brookes.ac.uk/Nottingham2022/L9.pdf|Slides]] ||DS || |
| Line 47: | Line 47: |
| || ||09:00 ||Lecture 10. ''Cupriavadus necator'' ''' ''' ''' ''' ||[[http://mudsharkstatic.brookes.ac.uk/Nottingham2022/L10.pdf|Slides]] ||NP || | || ||09:00 ||Lecture. ''Cupriavadus necator'' ''' ''' ''' ''' ||[[http://mudsharkstatic.brookes.ac.uk/Nottingham2022/L10.pdf|Slides]] ||NP || |
!! Under Construction - Contents Liable to Change !!
Workshop on Metabolic Modelling
Nottingham 2024
Tutors
- Mark Poolman (MP: Oxford Brookes University)
- Trunil Desai (DS: Oxford Brookes University)
- Pareena Verma (PV: Oxford Brookes University)
- Cristiana Sebu (CS: University of Malta)
Reading List
A reading list for topics covered in the course is provided here
Course Timetable and Resources
Day |
Time |
Activity |
Links |
Lecturer |
Monday |
AM |
|
|
|
09/12/2024 |
09:00 |
Arrival, Admin & Registration |
|
|
|
PM |
|
|
|
|
12:00 |
Lunch |
|
|
|
13:00 |
Welcome and introduction to the course. Outline of the week. |
|
MP et al |
|
|
( Keynote DF online?) |
|
|
|
|
Lecture: Introduction to metabolic modelling. Mathematical representation of metabolic networks. |
DF ?? |
|
|
|
Tea/coffee |
|
|
|
|
Python and computational representation of metabolic networks. +Minor updates |
MP |
|
|
|
P1. Computers: checking internet connectivity, software installation.-> P2 |
Installation of ScrumPy. |
All |
|
|
|
|
|
Tuesday |
AM |
|
|
|
|
09:00 |
P2. Python |
All |
|
|
|
Lecture: Null space, subsets and elementary modes |
CS |
|
|
11:00 |
Break |
|
|
|
|
P3. Null space, subsets and elementary modes |
All |
|
|
13:00 |
Lunch |
|
|
|
PM |
Lecture. Biotechnological applications of elementary modes analysis |
DF |
|
|
|
P4. Elementary Modes of the Woods-Ljungdahl Pathway |
All |
|
|
|
|
|
|
Wednesday |
|
|
|
|
|
09:00 |
Lecture: Linear programming and Flux Balance Analysis |
MP |
|
|
|
Lecture: Validation and construction of models |
TD |
|
|
11:00 |
Break |
|
|
|
|
Lecture: Determination of minimal media requirements for Campylobacter jejuni |
DS |
|
|
|
P5: Determination of minimal media requirements for Campylobacter jejuni |
All |
|
|
13:00 |
Lunch |
|
|
|
PM |
Lecture: Phaeodactylum tricornutm for biofuel synthesis |
DS |
|
|
|
P6. Identifying pathways for TAG synthesis in P. tricornutm |
All |
|
|
16:45 |
|
|
|
|
|
|
|
|
Thursday |
AM |
|
|
|
|
09:00 |
Lecture. Cupriavadus necator |
NP |
|
|
|
P6 (ctd) P7: KOs for ethelene production in C. necator |
|
|
|
13:00 |
Lunch |
|
|
|
14:00 |
Practical or Lecture here (LPEMs ?? Reaction CCs ??) |
|
|
|
|
|
|
|
Friday |
AM |
|
|
|
|
09:00 |
Complete unfinnished practicals |
|
|
|
11:00 |
General discussion. AOB |
|
|
|
13:00 |
Lunch |
||
|
14:00 |
Go Home ! |