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| || ||14:00 ||Lecture: Introduction to python and metabolic modelling ||[[http://mudsharkstatic.brookes.ac.uk/Nottingham2024/L1.pdf|Slides]] ||MP || | || ||14:00 ||L1: Introduction to python and metabolic modelling ||[[http://mudsharkstatic.brookes.ac.uk/Nottingham2024/L1.pdf|Slides]] ||MP || |
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| || ||15:00 ||P1. Computers: checking internet connectivity, software installation.-> P2 ||[[https://gitlab.com/MarkPoolman/scrumpy/-/wikis/Manual/Install|Installation]] of [[https://mudshark.brookes.ac.uk/ScrumPy|ScrumPy]]. ||All || || ||16:00 ||P2. Introduction to python || ||All || |
|| ||15:00 ||P1: Computers: checking internet connectivity, software installation.-> P2 ||[[https://gitlab.com/MarkPoolman/scrumpy/-/wikis/Manual/Install|Installation]] of [[https://mudshark.brookes.ac.uk/ScrumPy|ScrumPy]]. ||All || || ||16:00 ||P2: Introduction to Python ||[[https://mudshark.brookes.ac.uk/Meetings/Nottingham2022/Prac2|Prac2]]||All || |
| Line 26: | Line 26: |
| || ||09:00 ||P2. Pythoncontinued ... ||[[https://mudshark.brookes.ac.uk/Meetings/Nottingham2022/Prac2|Prac2]] ||All || || ||10:00 ||Lecture Intruction to metabolic modelling || ||DF || || ||11:00 ||Lecture: Null space, subsets and elementary modes ||[[http://mudsharkstatic.brookes.ac.uk/Nottingham2022/L4.pdf|Slides]] ||CS || |
|| ||09:00 ||P2: Introduction to Python (continued) ||[[https://mudshark.brookes.ac.uk/Meetings/Nottingham2022/Prac2|Prac2-(ctd)]] ||All || || ||10:00 ||L2: Introduction to metabolic modelling ||[[http://mudsharkstatic.brookes.ac.uk/Nottingham2024/L2.pdf|Slides]] ||DF || || ||11:00 ||L3: Null space, subsets and elementary modes ||[[http://mudsharkstatic.brookes.ac.uk/Nottingham2022/L4.pdf|Slides]] ||CS || |
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| || ||14:00 ||P3. practicalsame as india P3 ||[[https://mudshark.brookes.ac.uk/Meetings/Nottingham2022/Prac3|Prac3]] ||All || | || ||14:00 ||P3: Basic Model Properties ||[[https://mudshark.brookes.ac.uk/Meetings/Nottingham2022/Prac3|Prac3]] [[http://mudsharkstatic.brookes.ac.uk/Nottingham2022/ScrumPySlides.pdf|Slides]] ||All / MP || |
(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)
- Prof. David Fell (DF: Oxford Brookes University ) - Online
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 |
|
14:00 |
L1: Introduction to python and metabolic modelling |
MP |
|
|
|
Tea/coffee |
|
|
|
15:00 |
P1: Computers: checking internet connectivity, software installation.-> P2 |
Installation of ScrumPy. |
All |
|
16:00 |
P2: Introduction to Python |
All |
|
Tuesday |
AM |
|
|
|
|
09:00 |
P2: Introduction to Python (continued) |
All |
|
|
10:00 |
L2: Introduction to metabolic modelling |
DF |
|
|
11:00 |
L3: Null space, subsets and elementary modes |
CS |
|
|
13:00 |
Lunch |
|
|
|
14:00 |
P3: Basic Model Properties |
All / MP |
|
|
16:00 |
Lecture: Construction and curation of GSMs |
TD/PV |
|
|
|
|
|
|
Wednesday |
|
|
|
|
|
09:00 |
P3 continued |
|
All |
|
10:00 |
Lecture. Biotechnological applications of elementary modes analysis |
DF |
|
|
11:00 |
P4. Elementary Modes of the Woods-Ljungdahl Pathway |
All |
|
|
13:00 |
Lunch |
|
|
|
14:00 |
Lecture: Linear programming and flux balance analysis |
Slides |
MP |
|
15:00 |
Lecture: Phaeodactylum tricornutm |
PV |
|
|
|
P5: Phaeodactylum tricornutm |
Prac5 |
All |
|
|
|
|
|
Thursday |
AM |
|
|
|
|
09:00 |
P5 continued |
- |
- |
|
10:00 |
Lecture: Correlation coefficients and LPEMs |
Slides |
CS |
|
13:00 |
Lunch |
|
|
|
14:00 |
P7. LPEM? |
|
All |
|
|
|
|
|
Friday |
AM |
|
|
|
|
09:00 |
Discussion |
|
All |
|
12:00 |
Lunch |
||
|
14:00 |
Go Home ! |