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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 ??

Course Timetable and Resources

Day	Time	Activity	Links	Lecturer
30/05/23 Tuesday
AM	09:00	Arrival, Admin & Registration Hotel check-in etc
	13:00	Lunch

PM	14:00	Welcome and introduction to the course - why do modelling?	Slides	MP (Not Yet Created)
		Lecture 1: Introduction to metabolic modelling. Mathematical representation of metabolic networks.	Slides	YS (Cut down and align w/ L3)
	15:30	Tea/coffee
		Lecture 2: Python and computational representation of metabolic networks.	Slides	MP
		P1. Computers: checking internet connectivity, software installation.	Installing ScrumPy	All (Not Yet Created)
		P2. Python and ScrumPy	Prac2	All (Review)
	1800	Close

Wednesday
AM	09:00	Lecture 3: Null space and elementary modes and conserved cycles (? keep the latter ? something else ?)	Slides	OE (review - ensure alligned w/ L2 and P3)
		P3. Null space, subsets and elementary modes	Prac3	All (review - do we need more?)
	10:30	tea/coffee
		P3 continues
	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		All

Thursday			Prac4
AM	09:00	Lecture 4. Linear programming and Flux Balance Analysis	Slides	OE
		Lecture 5: S. typhim model	Slides	MP
	10:30	Break
		S.typhim prac	Prac4	All (Styphim ? to big a jump from P3?)

	13:00	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
AM	09:00	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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|| ||09:00 ||Lecture 3: Null space and elementary modes and conserved cycles (? keep the latter ? something else ?) ||[[http://mudsharkstatic.brookes.ac.uk/Barcelona2023/L3.pdf|Slides]] ||OE (review - ensure alligned w/ L2 and P3) ||
+||AM||09:00 ||Lecture 3: Null space and elementary modes and conserved cycles (? keep the latter ? something else ?) ||[[http://mudsharkstatic.brookes.ac.uk/Barcelona2023/L3.pdf|Slides]] ||OE (review - ensure alligned w/ L2 and P3) ||
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-|| ||09:00 ||Lecture 4. Linear programming and Flux Balance Analysis ||[[http://mudsharkstatic.brookes.ac.uk/Barcelona2023/L4.pdf|Slides]] ||OE ||
+||AM||09:00 ||Lecture 4. Linear programming and Flux Balance Analysis ||[[http://mudsharkstatic.brookes.ac.uk/Barcelona2023/L4.pdf|Slides]] ||OE ||
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-||Friday || ||Lecture 7: construction and validation ||[[http://mudsharkstatic.brookes.ac.uk/Barcelona2023/L7.pdf|Slides]] ||DS ||
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||AM ||09:00 ||Lecture 7: construction and validation ||[[http://mudsharkstatic.brookes.ac.uk/Barcelona2023/L7.pdf|Slides]] ||DS ||