Difference between revisions of "Introduction to Systems Biology"

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(Welcome to the wiki of Introduction to Systems Biology 2013-2014)
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==Welcome to the wiki of Introduction to Systems Biology 2013-2014==
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==Welcome to the wiki of Introduction to Systems Biology 2016-2017==
  
General information about the course can be found in this document:
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The schedule of the course can be found in this document at [http://vurooster.nl/course/X_428565 vurooster.nl]
[[Media:general information introSB.pdf]]
 
*please read this carefully!!
 
 
 
The schedule of the course can be found in this document at vurooster.nl[http://vurooster.nl/course/AM_470631]
 
 
 
An alternative schedule can be found here [[Media:Planning_InSB_2013_2014.pdf]]. It also contains information on deadlines, exams etc.
 
 
 
'''Literature assignment information and groups'''
 
 
 
To be announced
 
 
 
'''Example of an abstract'''
 
 
 
Here is an example of an abstract. It discusses a subject, its ''status quo'', and places a few recent scientific papers in this context. Not a thorough scientific review, but food for thought for the general scientific reader. [http://www.nature.com/news/2010/100714/full/news.2010.351.html Who should pay for the police?]
 
  
 
'''Grading'''
 
'''Grading'''
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Your final grade for Introduction to Systems Biology will consist of the following components:
 
Your final grade for Introduction to Systems Biology will consist of the following components:
 
* 30% deficiency courses (all deficiencies having equal weight)
 
* 30% deficiency courses (all deficiencies having equal weight)
* 40% assignments (all assignments having equal weight)
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* 70% written exam
* 15% individual abstract about the literature subject
 
* 15% group presentation about the literature subject
 
 
 
 
 
===============================================================
 
 
 
 
 
'''September 4th'''
 
*assignment:[[Media:introSB_assignment.pdf]]
 
*slides:[[Media:intro SB 2012-2013.pdf]]
 
mail to b.teusink@vu.nl
 
 
 
 
 
'''Artis lectures'''[http://www.artis.nl/artis-academie/programma/colleges/collegereeks-microbiologie/]
 
 
 
*      Coordinator of the Lecture series on Microbiology in Artis is prof Remco Kort (remco.kort@tno.nl).
 
* The lectures will take place in Artis Zoo, in the lecture room “De Volharding” (map number 42 [[Media:Artismap.pdf]]), which is situated at 10-15 min. walking distance from the main entrance.
 
* you will receive your entrance tickets for all lectures (and October 25 for the SB students) , which will give access to Artis on the lecture dates
 
* Be aware that the lectures will start 10.00 A.M. sharp, and there will be no entrance to the lecture room after 10.00 A.M. Lectures will end at 12.00 A.M. (coffee break from 11.00 to 11.15 A.M.)
 
 
 
== OLD MATERIAL BELOW ==
 
 
 
 
 
'''September 26th'''
 
 
 
* Slides of the lecture by Dr. Hoefsloot: [[Media:Top_Down_Sysbio.pdf]]
 
 
 
Additional information can be found in the following three papers 
 
* [http://dx.doi.org/10.1038/nbt1209-1135 Multiple hypothesis testing]
 
* [http://dx.doi.org/10.1038/nbt0308-303 Principal component analysis]
 
* [http://dx.doi.org/10.1038/nbt1205-1499 Gene clustering]
 
 
 
When working from your own PC, see the [http://www.ub.vu.nl/en/facilities/working-from-home/index.asp library website] how to get access to online journals (Menu point "Facilities: Working from home").
 
 
 
 
 
Mathematica Exercises can be found here: http://wiki.cs.vu.nl/mp/images/9/9d/Mathematica_lecture.zip
 
Answers can be found here: http://wiki.cs.vu.nl/mp/images/4/46/Mathematica_lecture_answers.zip
 
 
 
Also, VU students can download Mathematica for free at: http://www.nat.vu.nl/~ivo/MM/MM8.04
 
To activate your copy of Mathematica, please visit: http://itg.few.vu.nl/applications/303/Mathematica_site_license.html
 
 
 
'''October 3rd'''
 
 
 
* Slides of the lecture by Prof. Teixeira de Mattos: [[Media:Intro_SysBiol_okt_2012.pdf]]
 
 
 
Assignment
 
 
 
* Description: [[Media:Assignment_balances.pdf]]
 
* Excel file: [[Media:micfyscalcexercise.xls]]
 
* Papers: [http://dx.doi.org/10.1128/JB.00562-09 Bekker et al 2009] and [http://dx.doi.org/10.1128/AEM.01507-12 Sharma et al. 2012]
 
 
 
'''Note: updated Excel file''' [[Media:micfyscalcexercise_v2.xls]]
 
 
 
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Back to: [[Fundamentals of Bioinformatics]] | [[Introduction to Systems Biology]]
 
Back to: [[Fundamentals of Bioinformatics]] | [[Introduction to Systems Biology]]
  
 
{{Footer Bioinformatics}}
 
{{Footer Bioinformatics}}

Revision as of 10:24, 24 August 2016

Welcome to the wiki of Introduction to Systems Biology 2016-2017

The schedule of the course can be found in this document at vurooster.nl

Grading

Your final grade for Introduction to Systems Biology will consist of the following components:

  • 30% deficiency courses (all deficiencies having equal weight)
  • 70% written exam

Back to: Fundamentals of Bioinformatics | Introduction to Systems Biology



Back to: Bioinf & Sys Bio Master | Bioinf & Sys Bio Internships | Bioinf & Sys Bio Projects