[Bioperl-l] Re: [BiO BB] About array CGH data based on BAC clones

[Philippe Hupé]

Alex Zhang a écrit :

>Hello everyone,
>
>Is there anybody who has the experience of
>analyzing array CGH data based on BAC clones
>to identify the BACs which are amplified or
>deleted(gain or loss)? Any soft tools or 
>packages recommended?
>
>Thank you very much ahead of time!
>
>Sincerely,
>  Alex
>
>
>	
>		
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Dear colleague,


The bioinformatics team of Institut Curie has developed several tools 
related to the analysis of array CGH data:
- GLAD for breakpoint detection
- MAIA for automatic microarray image analysis
- MANOR for normalisation of microarray data 
- VAMP, a java graphical interface for visualisation and analysis of CGH 
profiles.
- CAPweb, a suite of tools for the management, visualization and 
analysis of CGH-arrays
VAMP can be  requested at vamp at curie.fr , MAIA at maia at curie.fr , CAPweb 
at capweb at curie.fr , GLAD at glad at curie.fr and MANOR at manor at curie.fr

A VAMP demo is available at http://bioinfo.curie.fr/vamp (Then click on 
Direct Launch and File->Import)
Two movies give you an overview of VAMP software capabilities.
        - http://bioinfo-out.curie.fr/tutorial/vamp/vamp-demo1.html
        - http://bioinfo-out.curie.fr/tutorial/vamp/vamp-demo2.html
        - http://bioinfo-out.curie.fr/tutorial/vamp/vamp-demo3.html


You can visit our Web site at http://bioinfo.curie.fr


You can try CAPweb which is a complete web platform  at the following 
url: http://bioinfo.curie.fr/CAPweb. It allows to analyze your data 
directly from the gpr file and the clone info file. It includes the 
normalization, the breakpoints detection, the data storage and the 
visualization. This environment can be installed directly in our lab. Do 
not hesitate to ask for questions at capweb at curie.fr


Best regards,


Philippe hupé

-- 
Philippe Hupé
UMR 144 - Service Bioinformatique
Institut Curie
Laboratoire de Transfert (4ème étage)
26 rue d'Ulm
75005 Paris - France
 	
Email :  Philippe.Hupe at curie.fr
Tél :	 +33 (0)1 44 32 42 75
Fax :  	 +33 (0)1 42 34 65 28

website : http://bioinfo.curie.fr