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| = Delhi Workshop on Metabolic Modelling 2012 = This is an activity of the collaborative project [[UKIPA|Development of Metabolic Models to Support Systems Biology Approaches to Bioenergy Research]] |
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| = Delhi Workshop on Metabolic Modelling 2012 = | == About the Workshop == Why here? Why now? See the [[attachment:intro.pdf|introduction]]. |
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| == Important note to students == | |
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| Not all details here are yet finalised, so do check back regularly. | Mark can be contacted on mgpoolman AT brookes.ac.uk |
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| === Student Contributions === The last hour of the first four morning sessions will be given over to student presentations. Students will be informed later as to the exact timetabling of their talks. ||'''Time''' ||'''Activity''' ||'''Who''' || ||Mon 15th, AM ||[[Meetings/Delhi2012/Lectures/Session1|Session 1]]: Introduction to metabolic modelling. Mathematical representation of metabolic networks. Null space and its significance. ||David Fell; Mark Poolman || ||Mon 15th, PM ||[[Meetings/Delhi2012/Practicals/Practical_1|Practical 1]]: Familiarisation with pathway and enzyme databases. ||Hassan Hartman || ||Tue 16th, AM ||[[Meetings/Delhi2012/Lectures/Session2|Session 2]]: Applications of elementary modes to real systems. ||David Fell; Sudip Kundu || ||Tue 16th, PM ||[[Meetings/Delhi2012/Practicals/Practical_2|Practical 2]]: Brief Python introduction; Null space and elementary modes analysis with {{{ScrumPy}}} ||Hassan Hartman; Sudip Kundu || ||Wed 17th, AM ||[[Meetings/Delhi2012/Lectures/Session3|Session 3]]: Linear Programming and Flux Balance Analysis. Building genome-scale metabolic models: data sources and issues. ||Mark Poolman; Oliver Ebenhoeh || ||Wed 17th, PM ||[[Meetings/Delhi2012/Practicals/Practical_3|Practical 3]]: Introduction to linear programming and Flux Balance Analysis with {{{ScrumPy}}} ||Hassan Hartman; Sudip Kundu || ||Thu 18th, AM ||[[Meetings/Delhi2012/Lectures/Session4|Session 4]]: Applications of genome-scale modelling. ||Mark Poolman; Oliver Ebenhoeh; Sudip Kundu || ||Thu 18th, PM ||[[Meetings/Delhi2012/Practicals/Practical_4|Practical 4]]: FBA continued ||Hassan Hartman; Sudip Kundu || ||Fri 19th, AM ||[[Meetings/Delhi2012/Lectures/Session5|Session 5]]: 1. Metabolic scope 2. Review and Conclusions ||Oliver Ebenhoeh; All || |
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| ||'''Time''' ||'''Activity''' ||'''Who''' || ||Mon 15th, AM ||[[Meetings/Delhi2012/Lectures/Session1 | Session 1]]: Introduction to metabolic modelling. Mathematical representation of metabolic networks. Null space and it's significance. ||David Fell; Mark Poolman || ||Mon 15th, PM ||[[Meetings/Delhi2012/Practicals/Practical_1|Practical 1]]: Familiarisation with pathway and enzyme databases. ||Hassan Hartman || ||Tue 16th, AM ||[[Meetings/Delhi2012/Lectures/Session2 | Session 2]]: Null spce and elementary modes. Applications of elementary modes to real systems. ||David Fell; Mark Poolman; Sudip Kundu || ||Tue 16th, PM ||[[Meetings/Delhi2012/Practicals/Practical_2|Practical 2]]: Brief Python introduction; Elementary modes analysis ||Hassan Hartman; Sudip Kundu || ||Wed 17th, AM ||[[Meetings/Delhi2012/Lectures/Session3 | Session 3]]: Linear Programming and Flux Balance Analysis. Building genome-scale metabolic models: data sources and issues. ||Mark Poolman; Oliver Ebenhoeh || ||Wed 17th, PM ||[[Meetings/Delhi2012/Practicals/Practical_3|Practical 3]]: Intro to FBA with {{{ScrumPy}}} ||Hassan Hartman; Sudip Kundu || ||Thu 18th, AM ||[[Meetings/Delhi2012/Lectures/Session4 | Session 4]]: Applications of genome-scale modelling and/or metabolic scope ||Mark Poolman; Oliver Ebenhoeh; Sudip Kundu || ||Thu 18th, PM ||[[Meetings/Delhi2012/Practicals/Practical_4|Practical 4]]: FBA continued and/or metabolic scope ||Hassan Hartman; Sudip Kundu || ||Fri 19th, AM ||[[Meetings/Delhi2012/Lectures/Session5 | Session 5]]: 1. Metabolic scope (if not in session 4). 2. Review and Conclusions ||Oliver Ebenhoeh; All || ||Fri 19th, AM ||[[Meetings/Delhi2012/Practicals/Practical_5|Practical 5]]: Metabolic scope ||Oliver Ebenhoeh || |
== After the workshop == |
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[[Meetings/Delhi2012/Timetable |Timetable ]] [[Meetings/Delhi2012/Lectures | Lectures]] [[Meetings/Delhi2012/Practicals | Practicals]] = Practical 2 = == Introduction to Python == == Introduction to ScrumPy == == Elementary modes analysis == = Practical 3 = == Introduction to Flux Balance Analysis in ScrumPy == = Practical 3 = == Flux Balance Analysis in ScrumPy (continued) == |
See the [[/PhotoRecord|photographic record]] |
Delhi Workshop on Metabolic Modelling 2012
This is an activity of the collaborative project Development of Metabolic Models to Support Systems Biology Approaches to Bioenergy Research
About the Workshop
Why here? Why now? See the introduction.
Mark can be contacted on mgpoolman AT brookes.ac.uk
Timetable
Student Contributions
The last hour of the first four morning sessions will be given over to student presentations. Students will be informed later as to the exact timetabling of their talks.
Time |
Activity |
Who |
Mon 15th, AM |
Session 1: Introduction to metabolic modelling. Mathematical representation of metabolic networks. Null space and its significance. |
David Fell; Mark Poolman |
Mon 15th, PM |
Practical 1: Familiarisation with pathway and enzyme databases. |
Hassan Hartman |
Tue 16th, AM |
Session 2: Applications of elementary modes to real systems. |
David Fell; Sudip Kundu |
Tue 16th, PM |
Practical 2: Brief Python introduction; Null space and elementary modes analysis with ScrumPy |
Hassan Hartman; Sudip Kundu |
Wed 17th, AM |
Session 3: Linear Programming and Flux Balance Analysis. Building genome-scale metabolic models: data sources and issues. |
Mark Poolman; Oliver Ebenhoeh |
Wed 17th, PM |
Practical 3: Introduction to linear programming and Flux Balance Analysis with ScrumPy |
Hassan Hartman; Sudip Kundu |
Thu 18th, AM |
Session 4: Applications of genome-scale modelling. |
Mark Poolman; Oliver Ebenhoeh; Sudip Kundu |
Thu 18th, PM |
Practical 4: FBA continued |
Hassan Hartman; Sudip Kundu |
Fri 19th, AM |
Session 5: 1. Metabolic scope 2. Review and Conclusions |
Oliver Ebenhoeh; All |
After the workshop
See the photographic record