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| || || ||P1. Computers: checking internet connectivity, software installation. || [[https://mudshark.brookes.ac.uk/Meetings/India2024/ScrumPyInstall|Prac1]] ||All || | || || ||P1. Computers: checking internet connectivity, software installation. ||[[https://mudshark.brookes.ac.uk/Meetings/India2024/ScrumPyInstall|Prac1]] ||All || |
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| ||AM ||10:00 ||Lecture 3: Genome to Pathway using Pathway Tools || Demo||DS || | ||AM ||10:00 ||Lecture 3: Genome to Pathway using Pathway Tools ||Demo ||DS || |
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| ||AM ||14:00 ||P6: Antimicrobial target identification by GSMM|| [[http://mudsharkstatic.brookes.ac.uk/Nepal2024/P5_instructions.pdf|Prac6]] [[http://mudsharkstatic.brookes.ac.uk/Nepal2024/P5_tar.tar|Materials]] ||All || | ||AM ||14:00 ||P6: Antimicrobial target identification by GSMM ||[[http://mudsharkstatic.brookes.ac.uk/Nepal2024/P5_instructions.pdf|Prac6]] [[http://mudsharkstatic.brookes.ac.uk/Nepal2024/P5_tar.tar|Materials]] ||All || |
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Metabolic Modelling: Tools, Techniques, and Applications in Research
Nepal 2024
Tutors
- Dr Mark Poolman (MP: Oxford Brookes University)
- Dr Dipali Singh (DS: Quadram Institute, Norwich)
- Pareena Verma (PV: Oxford Brookes University)
- Dr Trunil Desai (TD: Oxford Brookes University)
Guest Speaker
- Dr Anu Raghunathan (AR: National Chemistry Laboratory, Pune)
Course Timetable and Resources
Day |
Time |
Activity |
Links |
Tutor |
Day 1 - Mon(23/09) |
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|
|
|
PM |
09:30 |
Arrival, Admin & Registration etc |
|
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|
10:00 |
Welcome and introduction to the course - why do modelling? |
|
DS/MP |
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|
Lecture 1: Introduction to metabolic modelling. |
PV/TD |
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Lecture 2: Python and computational representation of metabolic networks. |
TD |
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P1. Computers: checking internet connectivity, software installation. |
All |
|
AM |
12:00 |
Lunch |
|
|
|
13:00 |
P1 Continue |
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|
14:00 |
P2. Python and ScrumPy |
All |
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15:00 |
Tea/Coffee Break |
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15:30 |
P2 Continue |
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Close |
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Day 2 - Tues(24/09) |
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|
AM |
10:00 |
Lecture 3: Genome to Pathway using Pathway Tools |
Demo |
DS |
|
11:00 |
Lecture 4. Linear programming, Flux Balance Analysis and Applications |
|
AR |
PM |
12:00 |
Lunch |
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|
13:00 |
P4: Linear programming and Flux Balance Analysis |
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|
15:00 |
Tea/Coffee Break |
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15:30 |
P4. Continue |
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16:00 |
Lecture 5: Determination of minimal media requirements for Campylobacter jejuni |
DS |
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Close |
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Day 3 Wed (25/09) |
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|
10:00 |
P5: Determination of minimal media requirements for Campylobacter jejuni |
All |
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PM |
12:00 |
Lunch |
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|
13:00 |
Lecture 6: Antimicrobial target identification by GSMM |
PV/MP |
|
AM |
14:00 |
P6: Antimicrobial target identification by GSMM |
All |
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|
15:00 |
Tea/Coffee Break |
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|
15:30 |
Group discussion: Please form a group of 4-5 to discuss project ideas where metabolic modelling can be applied. |
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Close |
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Day 4 - Thurs (26/09) |
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|
AM |
10:00 |
Participants to present the outcome of the group discussion |
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PM |
12:00 |
Lunch |
|
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|
13:00 |
P6. Continue |
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|
15:00 |
Finish Practicals/General Discussion |
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All |
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Go Home! |
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