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| * Prof. David Fell (DF: Oxford Brookes University ) - Online | |
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| || || || ( Keynote DF online?) || || || | || || ||( Keynote DF online?) || || || |
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| || || ||P1. Computers: checking internet connectivity, software installation.-> P2 ||[[Meetings/Nottingham2022/ScrumPyInstall|Installation]] of !ScrumPy. ||All || | || || ||P1. Computers: checking internet connectivity, software installation.-> P2 ||[[https://gitlab.com/MarkPoolman/scrumpy/-/wikis/Manual/Install|Installation]] of !ScrumPy. ||All || |
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| || || ||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 || |
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| || ||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 || |
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| || ||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 || |
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| || || ||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]] ||PV || |
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| || ||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 || |
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| || ||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)
- 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 |
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09/12/2024 |
09:00 |
Arrival, Admin & Registration |
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PM |
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12:00 |
Lunch |
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13:00 |
Welcome and introduction to the course. Outline of the week. |
|
MP et al |
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( Keynote DF online?) |
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Lecture: Introduction to metabolic modelling. Mathematical representation of metabolic networks. |
DF ?? |
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Tea/coffee |
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Python and computational representation of metabolic networks. +Minor updates |
MP |
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P1. Computers: checking internet connectivity, software installation.-> P2 |
Installation of ScrumPy. |
All |
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Tuesday |
AM |
|
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09:00 |
P2. Python |
All |
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Lecture: Null space, subsets and elementary modes |
CS |
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11:00 |
Break |
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P3. Null space, subsets and elementary modes |
All |
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13:00 |
Lunch |
|
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|
PM |
Lecture. Biotechnological applications of elementary modes analysis |
DF |
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P4. Elementary Modes of the Woods-Ljungdahl Pathway |
All |
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Wednesday |
|
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|
|
|
09:00 |
Lecture: Linear programming and Flux Balance Analysis |
MP |
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Lecture: Validation and construction of models |
TD |
|
|
11:00 |
Break |
|
|
|
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Lecture: Determination of minimal media requirements for Campylobacter jejuni |
PV |
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|
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P5: Determination of minimal media requirements for Campylobacter jejuni |
All |
|
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13:00 |
Lunch |
|
|
|
PM |
Lecture: Phaeodactylum tricornutm for biofuel synthesis |
DS |
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P6. Identifying pathways for TAG synthesis in P. tricornutm |
All |
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16:45 |
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Thursday |
AM |
|
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09:00 |
Lecture. Cupriavadus necator |
NP |
|
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P6 (ctd) P7: KOs for ethelene production in C. necator |
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13:00 |
Lunch |
|
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|
14:00 |
Practical or Lecture here (LPEMs ?? Reaction CCs ??) |
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Friday |
AM |
|
|
|
|
09:00 |
Complete unfinnished practicals |
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11:00 |
General discussion. AOB |
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13:00 |
Lunch |
||
|
14:00 |
Go Home ! |