Differences between revisions 3 and 4

R2 and Cytoscape: Inferring gene targets by graph based integration and analysis of molecular biological data

Piet Molenaar

Academic Medical Center, University of Amsterdam, the Netherlands

Recipe

Cytoscape version: 2.4 - 2.6

Plugins to Load: BiNGO (Piet: provide link), NetMatch (http://baderlab.org/Software/NetMatch)

GUI steps:

Open website: http://hgserver1.amc.nl/cgi-bin/r2/main.cgi
Logon with: un pw -> if problem switch to ppt (Piet: todo provide restricted access logon)
Click Timeseries: a panel provides you with three choices;
Select TableBuilder:
Choose cellline imr
Choose Notch1
tbc

Data Files: Notch timeseries (Piet: refine this)

Presentation:

Webstart: Time permitting

Video: Time permitting

-  ← Revision 3 as of 2008-08-08 14:03:01 →
  Size: 589
  Editor: PietMolenaar
  Comment:
+  ← Revision 4 as of 2008-08-08 14:16:41 →
  Size: 871
  Editor: PietMolenaar
  Comment:
-Deletions are marked like this.
+Additions are marked like this.
 Line 9:
-''_Plugins to Load_'': Network and Attribute I/O, Network Inference, Functional Enrichment
+''__Cytoscape version__'': 2.4 - 2.6 



''__Plugins to Load__'': BiNGO (Piet: provide link), NetMatch (http://baderlab.org/Software/NetMatch)



''__GUI steps__'': 

 1. Open website: http://hgserver1.amc.nl/cgi-bin/r2/main.cgi

 1. Logon with: un pw -> if problem switch to ppt (Piet: todo provide restricted access logon)

 1. Click Timeseries: a panel provides you with three choices; 

 1. Select TableBuilder: 

 1. Choose cellline imr

 1. Choose Notch1

 1. tbc
-Line 12:
+Line 23:
-. Open website: 

 1. Logon with: un pw -> if problem switch to ppt

 1. Click
+'''__Data Files__''': Notch timeseries (Piet: refine this)
-Line 16:
+Line 25:
-'''__Data Files__''': Use the notch timeseries (Piet: refine this)



'''__Presentation__''': TBD
+'''__Presentation__''':

Diff for "R2InferGeneTargetsRecipe"