Lecture Content &Handouts Bio-Modeling & Petri Nets 2016

Below follows a schedule of the classes in the seminar Bio-Modeling and Petri Nets 2016. The handouts provided are a summary of the first lectures. They are intended for this 2016 LIACS course only and should be used for that purpose. Please report remarks and/or errors. Thanks in advance.

From the table below lecture notes can be downloaded as pdf files by clicking the "X".

#
Lecture date
Content
Reading
PDF
00
02-02-2016
Introduction to Course/Logistics
01
02-02-2016
Introduction to BioModelling
02
09-02-2016
Introduction to PetriNets Handout
03
16-02-2014
Petri Nets ctd
04
23-02-2014
Practical class, intro to Snoopy, assignments Chapter 7 of Blaetke [X] [assignment]
05
01-03-2014
Guest Speakers
06
08-03-2014
Petri Nets ctd + Guest Speaker Coloured Petri Nets [X]
07
15-03-2014
Petri Nets ctd + Guest Speaker
08
22-03-2014
Practical
09
29-03-2014
No class
10
05-04-2014
Presentation by Michael Liem + paper presentation (Jelco + Lieuwe) Potato Tuber [X]
11
12-04-2014
project progress + paper presentation (Jeanne + Mats) C.elegans [X]+ Erratum
12
19-04-2014
projects progress + paper presentation (Lau + Alan) Model validation of biological pathways using Petri nets [X]
13
26-04-2014
projects progress + paper presentation (Stylianos + Marios) Modelling and Analysis of the Feeding Regimen [X]
14
03-05-2014
projects progress + paper presentation (Petros + Orfeas) A discrete Petri net model for cephalostatin [X]
15
10-05-2014
Final project presentations

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Course Notes BPN 2016


Grading is based on:

  • Participation in seminar discussions (10%)
  • Practical exercises (10%)
  • Presentation and discussion of journal papers (20%)
  • Contribution to a group project, modeling, presentation and report (60%)

The Final mark is the weighted average of the above as indicated, but under the additional condition that both:


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