Workshop on Metabolic Modelling

Nottingham 2024

Tutors

Mark Poolman (MP: Oxford Brookes University)
Trunil Desai (DS: Oxford Brookes University)
Pareena Verma (PV: Oxford Brookes University)
Cristiana Sebu (CS: University of Malta)
Prof. David Fell (DF: Oxford Brookes University ) - Online

Reading List

A reading list for topics covered in the course is provided here

Course Timetable and Resources

Day	Time	Activity	Links	Lecturer
Monday	AM
09/12/2024	09:00	Arrival, Admin & Registration
	PM
	12:00	Lunch
	13:00	Welcome and introduction to the course. Outline of the week.		MP et al
	14:00	L1: Introduction to python and metabolic modelling	Slides	MP
		Tea/coffee
	15:00	P1: Computers: checking internet connectivity, software installation.-> P2	Installation of ScrumPy.	All
	16:00	P2: Introduction to Python	Prac2	All
Tuesday	AM
	09:00	P2: Introduction to Python (continued)	Prac2-(ctd)	All
	10:00	L2: Introduction to metabolic modelling	Slides	DF
	11:00	L3: Null space, subsets and elementary modes	Slides	CS
	13:00	Lunch
	14:00	P3: Basic Model Properties	Prac3 Slides	All / MP
	16:00	L4: Construction and Curation of GSMs	Slides	TD/PV

Wednesday
	09:00	P3: (continued)		All
	10:00	L5: Biotechnological applications of elementary modes analysis	Slides	DF
	11:00	P4. Elementary Modes of the Woods-Ljungdahl Pathway	Prac4	All
	13:00	Lunch
	14:00	L6: Linear programming and flux balance analysis	Slides	MP
	15:00	L7: Phaeodactylum tricornutm 22/L9	Slides	PV
		P5: Phaeodactylum tricornutm	Prac5	All

Thursday	AM
	09:00	P5: (continued)	Prac5	-
	10:00	L8: Reaction Correlation Coefficients and LPEMs	Slides	CS
	13:00	Lunch
	14:00	P6: (? LPEM ? TBC ?)	Prac6	All

Friday	AM
	09:00	Discussion		All
	12:00	Lunch
	14:00	Go Home !

None: Meetings/Nottingham2024/Timetable (last edited 2024-12-06 14:46:49 by mark)

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-|| ||16:00 ||'''P2''': Introduction to Python ||[[https://mudshark.brookes.ac.uk/Meetings/Nottingham2024/Prac2|Prac2]] ||All ||
+|| ||16:00 ||'''P2''': Introduction to Python ||[[Meetings/Nottingham2024/Prac2|Prac2]] ||All ||
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-|| ||09:00 ||'''P2''': Introduction to Python ''(continued) '' ||[[https://mudshark.brookes.ac.uk/Meetings/Nottingham2024/Prac2|Prac2-(ctd)]] ||All ||
+|| ||09:00 ||'''P2''': Introduction to Python ''(continued) '' ||[[Meetings/Nottingham2024/Prac2|Prac2-(ctd)]] ||All ||
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-|| ||14:00 ||'''P3:''' Basic Model Properties ||[[https://mudshark.brookes.ac.uk/Meetings/Nottingham2024/Prac3|Prac3]]  [[http://mudsharkstatic.brookes.ac.uk/Nottingham2024/ScrumPySlides.pdf|Slides]] ||All / MP ||
+|| ||14:00 ||'''P3:''' Basic Model Properties ||[[Meetings/Nottingham2024/Prac3|Prac3]]  [[http://mudsharkstatic.brookes.ac.uk/Nottingham2024/ScrumPySlides.pdf|Slides]] ||All / MP ||
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-|| ||11:00 ||'''P4.''' Elementary Modes of the Woods-Ljungdahl Pathway ||[[https://mudshark.brookes.ac.uk/Meetings/Nottingham2024/Prac4|Prac4]] ||All ||
+|| ||11:00 ||'''P4.''' Elementary Modes of the Woods-Ljungdahl Pathway ||[[Meetings/Nottingham2024/Prac4|Prac4]] ||All ||
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-|| || ||'''P5: ''' ''Phaeodactylum tricornutm'' ||[[https://mudshark.brookes.ac.uk/Meetings/Nottingham2024/Prac5|Prac5]] ||All ||
+|| || ||'''P5: ''' ''Phaeodactylum tricornutm'' ||[[Meetings/Nottingham2024/Prac5|Prac5]] ||All ||
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-|| ||09:00 ||'''P5:''''' (continued) '' ||[[https://mudshark.brookes.ac.uk/Meetings/Nottingham2024/Prac5|Prac5]]||- ||
+|| ||09:00 ||'''P5:''''' (continued) '' ||[[Meetings/Nottingham2024/Prac5|Prac5]] ||- ||
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-|| ||14:00 ||P7. LPEM? || ||All ||
+|| ||14:00 ||'''P6:'''  (? LPEM ? TBC ?) ||[[https://mudshark.brookes.ac.uk/Meetings/Nottingham2024/Prac6|Prac6]]||All ||