Differences between revisions 8 and 9

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 talk.

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
28/06/18		Opening Ceremony
		Welcome and introduction to the course		DF
		Lunch
	PM	L1. Introduction to metabolic modelling. Mathematical representation of metabolic networks. Outline of the week	Slides	DF
		Tea/coffee
		L2. Computational representation of metabolic networks	Slides	MP
		P1. Computers: checking internet connectivity, software installation.	Installation of ScrumPy.	DF, MP, TDC,NM
Friday	AM	L3. Null space and elementary modes	Slides	NM
		P2. Python and ScrumPy	Prac2 instructions	DF, MP, TDC,NM
		Break
		P2. Python and ScrumPy (continued)	Prac2 instructions	DF, MP, TDC,NM
		Lunch
	PM	L4. Biotechnological applications of metabolic network analysis	Slides	DF
		P3. Models, kernels, subsets and elementary modes	Prac 3 instructions	All
		Break
		P3. Models, kernels, subsets and elementary modes (continued)		All
Monday	AM	L5. Linear Programming and Flux Balance Analysis	Slides	NM
		L6. Sources of data for metabolic models	Slides	DF
		Break
		P4. Structural analysis of the Calvin Cycle.	Prac 4 instructions	DF, MP, TDC,NM
		Lunch
	PM	L7. Building genome-scale metabolic networks	Slides	MP
		P5. Building a ScrumPy model from databases	Prac 5 instructions	All
Tuesday		L8. a, Acetobacterium woodii. b. Need soething else (was Nicole)	Noah's slides;	NM, ??
		P6. Flux Balance Analysis of fatty acid biosynthesis in E coli.	Prac 6 instructions	All

		L8 Modelling photosynthesis in eukaryotes (title TBC)	Need link to slides	KA
		P6 continued		All
		Tea/Coffee
		P7. Analysing a genome scale model	Instructions	All
		Close
		Dinner

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-= !!! Page under construction - Ignore it!!! =
= Workshop  on Metabolic Modelling =
== Introduction to Structural Modelling ==
__'''Note: **Items** in the timetable in represent new material.'''__
+= 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 talk.
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-== Course Timetable and Resources Index ==
Contents below are subject to modification, especially the links.
+== Course Timetable and Resources ==
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-||'''Thursday''' || ||Admin & Registration || || ||
||28/06/18 || ||Lunch || || ||
|| || ||Opening and introductions || ||DF ||
|| || ||L1.  Introduction to metabolic modelling.  Mathematical                     representation of metabolic networks.  Outline of the week ||[[http://mudsharkstatic.brookes.ac.uk/C1Net/Wshop4/L1.pdf|Slides]] ||DF ||
+||'''Thursday''' ||'''AM''' ||Admin & Registration || || ||
||28/06/18 || ||Opening Ceremony || || ||
|| || ||Welcome and introduction to the course || ||DF ||
|| || ||Lunch || || ||
|| ||'''PM''' ||L1.  Introduction to metabolic modelling.  Mathematical                     representation of metabolic networks.  Outline of the week ||[[http://mudsharkstatic.brookes.ac.uk/C1Net/Wshop4/L1.pdf|Slides]] ||DF ||
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-|| || || || || ||
|| || || || || ||
|| || || || || ||
||'''Friday''' || || || || ||
||29/06/18 || ||L3. Null space and elementary modes ||[[http://mudsharkstatic.brookes.ac.uk/Nepal2018/L3.pdf|Slides]] ||NM ||
+||'''Friday''' ||'''AM''' ||L3. Null space and elementary modes ||[[http://mudsharkstatic.brookes.ac.uk/Nepal2018/L3.pdf|Slides]] ||NM ||
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-|| || || || || ||
+|| || ||Break || || ||
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-|| || || || || ||
|| || ||L4. Biotechnological applications of metabolic network analysis L4a.**L4 B need something else (was Nicole)** ||[[http://mudsharkstatic.brookes.ac.uk/C1Net/Wshop4/L4.pdf|Slides]] ||DF, ** ?? ** ||
+|| || ||Lunch || || ||
|| ||'''PM''' ||L4. Biotechnological applications of metabolic network analysis ||[[http://mudsharkstatic.brookes.ac.uk/C1Net/Wshop4/L4.pdf|Slides]] ||DF ||
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-|| || || || || ||
|| ||15:45 ||P3. Models, kernels, subsets and elementary modes (continued) || ||All ||
|| || ||Close || || ||
|| || || || || ||
|| || || || || ||
||'''Saturday''' || || || || ||
||30/06/18 || ||L5. Linear Programming and Flux Balance Analysis ||[[http://mudsharkstatic.brookes.ac.uk/Nepal2018/L5.pdf|Slides]] ||NM ||
+|| || ||Break || || ||
|| || ||P3. Models, kernels, subsets and elementary modes (continued) || ||All ||
||'''Monday''' ||'''AM''' ||L5. Linear Programming and Flux Balance Analysis ||[[http://mudsharkstatic.brookes.ac.uk/Nepal2018/L5.pdf|Slides]] ||NM ||
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-|| || ||Coffee/Tea || || ||
+|| || ||Break || || ||
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-|| || || || || ||
|| || ||L7. Building genome-scale metabolic networks ||[[http://mudsharkstatic.brookes.ac.uk/Nepal2018/L7.pdf|Slides]] ||MP ||
+|| || ||Lunch || || ||
|| ||'''PM''' ||L7. Building genome-scale metabolic networks ||[[http://mudsharkstatic.brookes.ac.uk/Nepal2018/L7.pdf|Slides]] ||MP ||
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-|| || || || || ||
|| || || || || ||
|| || || || || ||
|| || || || || ||
||'''Sunday''' || || || || ||
||01/07/18 || ||L8. a, ''Acetobacterium woodii''.  b.''** Need soething else (was Nicole) **'' ||[[http://mudsharkstatic.brookes.ac.uk/C1Net/Wshop4/L8_NM.pdf|Noah's                         slides]]; ||NM, **??** ||
|| || || || || ||
+||'''Tuesday''' || ||L8. a, ''Acetobacterium woodii''.  b.''** Need soething else (was Nicole) **'' ||[[http://mudsharkstatic.brookes.ac.uk/C1Net/Wshop4/L8_NM.pdf|Noah's                         slides]]; ||NM, **??** ||
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-|| || ||L8 Modelling photosynthesis in eukaryotes (title TBC) ||**Need link to slides**||KA ||
+|| || ||L8 Modelling photosynthesis in eukaryotes (title TBC) ||**Need link to slides** ||KA ||
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-||'''Monday''' || ||Breakfast || || ||
||02/07/18 || ||P7 continued || ||All ||
|| || || || || ||
|| || || || ||All ||
|| || || || ||DF& MP ||
||'''Tuesday''' || || || || ||
||03/07/18 || || || || ||