Under Construction - Ignore !
Overview
Draft TimeTable.pdf (Will definitely change!)
Workshop on Metabolic Modelling
Nottingham 2022
Tutors
- Mark Poolman (MP: Oxford Brookes University)
- David Fell (DF: Oxford Brookes University)
- Yanica Said (YS: Oxford Brookes University)
- Dipali Singh (DS: Quadram Institute, Norwhich)
- Nicole Pearcy (NP: University of Nottingham)
Guest Speaker
* Prof. John Wain (Quadram Institute, Norwhich)
Reading List
A reading list for topics covered in the course is provided here.
Course Timetable and Resources
Day |
Time |
Activity |
Links |
Lecturer |
Tuesday |
AM |
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03/04/22 |
09:00 |
Arrival, Admin & Registration |
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PM |
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13:00 |
Lunch |
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' |
??? |
Introductions. Each participant introduces themself in 2-3 sentences: name, place of study/work; what they do. |
?? Do this or similar ?? |
Everyone |
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Welcome and introduction to the course. Outline of the week |
DF |
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14:00 |
L1. Introduction to metabolic modelling. Mathematical representation of metabolic networks. |
DF |
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Tea/coffee |
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L2. Computational representation of metabolic networks |
MP |
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P1. Computers: checking internet connectivity, software installation. |
Installation of ScrumPy. |
All |
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Close |
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Wednesday |
AM |
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09:30 |
L3. Null space and elementary modes |
NP |
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Demo for Prac 2. |
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MP |
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P2. Python and ScrumPy (Part 1) |
All |
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11:00 |
Break |
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P2. Python and ScrumPy (Part 2) |
All |
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13:00 |
Lunch |
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PM |
L3b. Examples of Elementary Modes Analysis |
DF |
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L4. Biotechnological applications of metabolic network analysis |
DF |
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Demo for Prac 3 |
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TBC |
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P3. Models, kernels, subsets and elementary modes |
All |
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Break |
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P3. Models, kernels, subsets and elementary modes (continued) |
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All |
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16:45 |
Close |
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Thursday |
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09:30 |
Demo for Prac4 |
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MP |
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P4. Structural analysis of the Calvin Cycle. |
Prac 4 ***instructions |
ALL |
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11:00 |
Break |
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L5. Linear Programming and Flux Balance Analysis |
NM |
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L6. Sources of data for metabolic models |
DF |
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13:00 |
Lunch |
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PM |
L7. The unique metabolism of Acetobacterium woodii |
NM |
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P5. Flux Balance Analysis of alkane biosynthesis in E coli. |
All |
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16:45 |
close |
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Friday |
AM |
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09:30 |
L8. a: Summary of Null-space and linear programming approaches b: Practical applications of LP |
MP, DF |
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P5 Flux Balance Analysis of alkane biosynthesis in E coli. |
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11:00 |
Break |
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Practical 5 continues |
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13:00 |
Lunch |
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Conclusions |
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