C1Net Workshop 2 on Metabolic Modelling
Course Timetable and Resources Index
Day |
Time |
Place |
Activity |
Links |
Lecturer |
Monday |
13:00 |
|
|
|
|
28/09/15 |
13:30 |
Mary O'Brien Room |
Workshop registration opens. |
|
MP, DF, (KA and NM) |
|
14:00 |
" |
Opening and introductions |
|
DF |
|
14:30 |
" |
L1. Structure of metabolic networks and their representation |
MP |
|
|
15:30 |
" |
Tea/coffee |
|
|
|
16:00 |
" |
L2. Basic Concepts for Modelling Enzyme Kinetics |
DF |
|
|
17:00 |
" |
P1. Plotting enzyme kinetic functions; graphical solution to a two enzyme system; rough time course calculation for an enzyme-catalysed reaction Plus: Computers: checking internet connectivity, software installati on. |
Practical_1 and Installation of ScrumPy |
DF, MP, KA |
|
18:30 |
Lodge |
Room registration for Pipe Partridge block (available from 14:00) |
|
|
|
19:00 |
Old Library |
Opening reception |
|
|
|
19:30 |
Deneke Dining Hall |
Dinner |
|
|
|
|
|
|
|
|
Tuesday |
08:00 |
Deneke Dining Hall |
Breakfast |
|
|
29/09/15 |
09:00 |
Mary O'Brien Room |
L3. Further enzyme kinetics for model building, plus |
DF |
|
|
10:00 |
|
L3a. Fitting enzyme kinetica |
Lecture 3a slides Supplementary Information on fitting kinetics |
DF |
|
10:30 |
|
Coffee/Tea |
|
|
|
11:00 |
|
L4. Python and ScrumPy |
MP |
|
|
12:30 |
Mary O'Brien Room |
Lunch (buffet) |
|
|
|
13:30 |
Mary O'Brien Room |
P2. Python and ScrumPy / L4a: Construction and Analysis of Kinetic Models with ScrumPy (Those remembering their Python and ScrumPy can move ahead to P3) |
Construction and Analysis of Models With ScrumPy Practical 2 Instructions |
MP, DF, (HH , KA,NM) |
|
14:30 |
|
P3. Investigating properties of basic model structures |
MP, DF, (HH, KA, NM) |
|
|
15:30 |
|
Tea/Coffee |
|
|
|
16:00 |
|
L5. Understanding the control of metabolism - intro to Metabolic Control Analysis |
DF |
|
|
17:00 |
|
P3 continued |
|
MP, DF, (HH, KA, NM) |
|
17:30 |
|
Close |
|
|
|
19:00 |
Deneke Dining Hall |
Dinner |
|
|
|
|
|
|
|
|
Wednesday |
08:00 |
Deneke Dining Hall |
Breakfast |
|
|
30/09/15 |
09:00 |
Mary O'Brien Room |
L6. Applications of Metabolic Control Analysis |
|
DF |
|
10:00 |
" |
P3 conclude and P4. Feedback inhibition. |
|
MP, DF, (HH, NM) |
|
10:30 |
|
Coffee/Tea |
|
|
|
11:00 |
|
P4 continued. |
|
MP, DF, (HH, NM) |
|
12:30 |
Mary O'Brien Room |
Lunch |
|
|
|
13:00 |
|
Free time. Possibility of punting using the college punts on the river Cherwell, or if unavailable, from the Cherwell Boathouse. |
|
|
|
16:00 |
Mary O'Brien Room |
Tea/Coffee. |
|
|
|
16:30 |
|
L7. Examples of metabolic models: Calvin cycle, threonine synthesis, Entner Duodorff pathway |
|
MP + DF |
|
17:30 |
|
S1: Review of outcomes from practicals 3 and 4. |
|
DF, NM |
|
19:00 |
Deneke Dining Hall |
Dinner |
|
|
|
|
|
|
|
|
Thursday |
08:00 |
Deneke Dining Hall |
Breakfast |
|
0 |
1/10/15 |
09:00 |
Mary O'Brien Room |
L8. MCA perspective on metabolic engineering from case studies. |
|
DF |
|
10:00 |
|
P5. Calvin cycle simulation. |
|
DF, MP, KA, NM |
|
10:30 |
|
Coffee/Tea |
|
|
|
11:00 |
|
P5 cont |
|
DF, MP, KA, NM |
|
12:30 |
Mary O'Brien Room |
Lunch |
|
|
|
13:30 |
Mary O'Brien Room |
P6. Engineering threonine production. |
|
DF, KA, NM |
|
14:30 |
|
P6 cont |
|
MP, DF |
|
15:30 |
|
Tea/Coffee |
|
|
|
16:00 |
|
G1: Intro to group work problems. |
|
DF, KA, NM |
|
17:30 |
|
Close |
|
|
|
18:30 |
Monson Room |
Pre-dinner drinks |
|
|
|
19:00 |
Monson Room |
Workshop dinner |
|
|
|
|
|
|
|
|
Friday |
08:00 |
Deneke Dining Hall |
Breakfast and room checkout (Lodge) |
|
|
2/10/15 |
09:00 |
Mary O'Brien Room |
G1 continued |
|
MP, DF, HH, KA, NM |
|
10:30 |
|
Coffee/Tea |
|
|
|
11:15 |
|
Reports from groups |
|
|
|
12:00 |
|
Any questions? Closing remark. Presentation of certificates |
|
MP, DF, HH, KA, NM |
|
12:30 |
Mary O'Brien Room |
Sandwich lunch (packed) |
|
|
|
13:30 |
|
Departure |
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