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| This timetable is not yet finalised. Both timings and content are liable to change, but the material here represents what will be covered in the talk. | This timetable is not yet finalised. Both timings and content are liable to change, but the material here represents what will be covered in the talks. |
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| || || ||Introductions. Each participant introduces themself in 2-3 sentences: name, place of study/work; what they do.|| || || | |
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| || || ||P1. Computers: checking internet connectivity, software installation. ||[[Meetings/C1netWork4/ScrumPyInstall|Installation]] of !ScrumPy. ||DF, MP, TDC,NM || | || || ||P1. Computers: checking internet connectivity, software installation. ||[[Meetings/Nepal2018/ScrumPyInstall|Installation]] of !ScrumPy. ||All || |
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| || || ||P2. Python and !ScrumPy ||[[Meetings/C1netWork4/Prac2|Prac2]] instructions ||DF, MP, TDC,NM || | || || ||Demo for Prac 2. || ||TBC || || || ||P2. Python and !ScrumPy (Part 1) ||[[Meetings/Nepal2018/Prac2|Prac2]] ***instructions ||All || |
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| || || ||P2. Python and !ScrumPy (continued) ||[[Meetings/C1netWork4/Prac2|Prac2]] instructions ||DF, MP, TDC,NM || | || || ||P2. Python and !ScrumPy (Part 2) ||[[Meetings/Nepal2018/Prac2|Prac2]] ***instructions ||All || |
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| || || ||P3. Models, kernels, subsets and elementary modes ||[[Meetings/C1netWork4/Prac3|Prac 3 instructions]] ||All || | || || ||Demo for Prac 3 || ||TBC || || || ||P3. Models, kernels, subsets and elementary modes ||[[Meetings/Nepal2018/Prac3|Prac 3]] ***instructions ||All || |
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| || || ||<<BR>>||<<BR>>|| || ||'''Monday''' ||'''AM''' ||P4. Structural analysis of the Calvin Cycle. ||[[Meetings/C1netWork4/Prac4|Prac 4 instructions]] ||ALL || || || ||Break|| || || |
|| || ||<<BR>> ||<<BR>> || || ||'''Monday''' ||'''AM''' ||Demo for Prac4 (??) || || || || || ||P4. Structural analysis of the Calvin Cycle. ||[[Meetings/Nepal2018/Prac4|Prac 4]] ***instructions ||ALL || || || ||Break || || || |
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| || || ||L6. Sources of data for metabolic models ||[[http://mudsharkstatic.brookes.ac.uk/C1Net/Wshop4/L6.pdf|Slides]]||DF|| | || || ||L6. Sources of data for metabolic models ||[[http://mudsharkstatic.brookes.ac.uk/C1Net/Wshop4/L6.pdf|Slides]] ||DF || |
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| || || ||P5. Flux Balance Analysis of fatty acid biosynthesis in ''E coli''. ||[[Meetings/C1netWork4/Prac6|Prac 5 instructions]] ||All || | || || ||P5. Flux Balance Analysis of fatty acid biosynthesis in ''E coli''. ||[[Meetings/Nepal2018/Prac5|Prac 5]] ***instructions ||All || |
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| || || ||P6. Analysing a genome scale model ||[[Meetings/C1NetWork4/Prac7|Instructions]]||All || || || ||Break|| || || |
|| || ||Intro to P6 - *** demonstrate datasets*** || ||MP || || || ||P6. Analysing a genome scale model ||[[Meetings/Nepal2018/Prac6|Prac 6]] ***instructions ||All || || || ||Break || || || |
Workshop on Metabolic Modelling - Provisional Timetable
This timetable is not yet finalised. Both timings and content are liable to change, but the material here represents what will be covered in the talks.
Tutors
- David Fell (DF: Oxford Brookes University)
- Mark Poolman (MP: Oxford Brookes University)
- Noah Mesfin (NM: Oxford Brookes University)
- Ela Al-Saidi (ES: Oxford Brookes University)
- Kailash Adhikari (KA)
Course Timetable and Resources
Day |
Time |
Activity |
Links |
Lecturer |
Thursday |
AM |
Admin & Registration |
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28/06/18 |
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Opening Ceremony |
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Introductions. Each participant introduces themself in 2-3 sentences: name, place of study/work; what they do. |
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Welcome and introduction to the course |
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DF |
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Lunch |
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PM |
L1. Introduction to metabolic modelling. Mathematical representation of metabolic networks. Outline of the week |
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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Friday |
AM |
L3. Null space and elementary modes |
NM |
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Demo for Prac 2. |
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TBC |
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P2. Python and ScrumPy (Part 1) |
Prac2 ***instructions |
All |
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Break |
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P2. Python and ScrumPy (Part 2) |
Prac2 ***instructions |
All |
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Lunch |
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PM |
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 |
Prac 3 ***instructions |
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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Monday |
AM |
Demo for Prac4 (??) |
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P4. Structural analysis of the Calvin Cycle. |
Prac 4 ***instructions |
ALL |
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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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Lunch |
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PM |
L7. Building genome-scale metabolic networks |
MP |
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P5. Flux Balance Analysis of fatty acid biosynthesis in E coli. |
Prac 5 ***instructions |
All |
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Tuesday |
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L8. a: The unique metabolism of Acetobacterium woodii. b: Beyond Structural Modelling. |
NM, EA |
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Intro to P6 - *** demonstrate datasets*** |
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MP |
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P6. Analysing a genome scale model |
Prac 6 ***instructions |
All |
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Break |
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L8 Modelling photosynthesis in eukaryotes (title TBC) |
**Need link to slides** |
KA |
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Lunch |
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All |
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P6 ctd. |
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All |
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Closing remarks |
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Certificates |
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