Differences between revisions 14 and 17 (spanning 3 versions)

Innotargets: Introduction to Metabolic Modelling

DRAFT/UNDER CONSTRUCTION - STUDENTS PLEASE IGNORE

Barcelona 2023

Tutors

Mark Poolman (MP: Oxford Brookes University)
Oliver Ebenhoeh (OE: Heinrich Heine University, Dusseldorf)
Yanica Said (YS: Oxford Brookes University)
Dipali Singh (DS: Quadram Institute, Norwich)

Guest Speaker ??

TBA ??

Reading List ??

Suggestions ?

Course Timetable and Resources

Day	Time	Activity	Links	Lecturer
Tuesday	AM
30/05/23	09:00	Arrival, Admin & Registration Hotel check-in etc

	PM
	13:00	Lunch
	14:00	Welcome and introduction to the course - why do modelling?	Slides	MP
		Lecture 1: Introduction to metabolic modelling. Mathematical representation of metabolic networks.	Slides	YS
		Tea/coffee
		Lecture 2: Python and computational representation of metabolic networks.	Slides	MP
		P1. Computers: checking internet connectivity, software installation.	Installation of ScrumPy.	All
		Close
Wednesday	AM
	09:00	P2. Python and ScrumPy	Prac2	All
		Lecture 3: Null space, subsets and elementary modes	Slides	OE
	11:00	Break
		P3. Null space, subsets and elementary modes	Prac3	All
	13:00	Lunch
PM	14:00	Guest lecture - Synthetic Biology: Uncovering principles of biological design applying math and experiments.		Dr. Rodriguez-Caso
	15:00	Depart social activity	Prac4	All
Thursday
		Lecture 4. Linear programming and Flux Balance Analysis	Slides	YS
		Lecture 5: S. typhim model	Slides	MP
		Break
		S.typhim prac	PracTyphim	All
		Lunch
		Lecture 6: Determination of minimal media requirements for Campylobacter jejuni	Slides	DS
		P5: Determination of minimal media requirements for Campylobacter jejuni	Prac5	All
Friday		Lecture 7: construction and validation	Slides	DS
		Finish practicals/General discussion/Something else
	13:00	Lunch
		Go home!

None: Meetings/Barcelona2023/Timetable (last edited 2023-05-29 12:34:39 by mark)

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-|| ||12:00 ||Lunch || || ||
|| ||13:00 ||Welcome and introduction to the course - why do modelling? ||[[https://mudsharkstatic.brookes.ac.uk/Barcelona2023/L0.pdf|Slides]] ||MP ||
+|| ||13:00 ||Lunch || || ||
|| ||14:00 ||Welcome and introduction to the course - why do modelling? ||[[https://mudsharkstatic.brookes.ac.uk/Barcelona2023/L0.pdf|Slides]] ||MP ||
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-|| ||PM          ''' ''' ||Lecture 4. Linear programming and Flux Balance Analysis ||[[http://mudsharkstatic.brookes.ac.uk/Barcelona2023/L4.pdf|Slides]] ||YS ||
+||PM ||14:00 ||Guest lecture - Synthetic Biology: Uncovering principles of biological design applying math and experiments. || ||Dr. Rodriguez-Caso ||
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-|| ||09:00 ||Lecture 5: S. typhim model ||[[http://mudsharkstatic.brookes.ac.uk/Barcelona2023/L5.pdf|Slides]] ||MP ||
+|| || ||Lecture 4. Linear programming and Flux Balance Analysis ||[[http://mudsharkstatic.brookes.ac.uk/Barcelona2023/L4.pdf|Slides]] ||YS ||
|| || ||Lecture 5: S. typhim model ||[[http://mudsharkstatic.brookes.ac.uk/Barcelona2023/L5.pdf|Slides]] ||MP ||
|| || ||Break || || ||
-Line 41:
+Line 43:
-|| ||11:00 ||Break || || ||
+|| || ||Lunch || || ||
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+Line 46:
+||Friday || ||Lecture 7: construction and validation ||[[http://mudsharkstatic.brookes.ac.uk/Barcelona2023/L7.pdf|Slides]] ||DS||
|| || ||Finish practicals/General discussion/Something else || || ||
-Line 45:
+Line 49:
-|| ||PM          ''' ''' ||Lecture 7:  staph epi ||[[http://mudsharkstatic.brookes.ac.uk/Barcelona2023/L7.pdf|Slides]] ||DS ||
|| || ||P6. Using the staph epi model ||[[https://mudsharkstatic.brookes.ac.uk/Nottingham2022/P6|Prac6]] ||All ||
||Friday || || || || ||
|| || ||Guest Lecture || || ||
|| || ||Finish practicals/General discussion/Something else || || ||
|| || ||Lunch || || ||
|| || ||Go Home || || ||
+|| || ||Go home! || || ||


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