[BioC] organism abbreviations (SPIA package)

[Jing Huang]

THANK You Marco. 

Jing

-----Original Message-----
From: Manca Marco (PATH) [mailto:m.manca at maastrichtuniversity.nl] 
Sent: Tuesday, August 23, 2011 12:32 PM
To: Jing Huang; 'bioconductor at r-project.org'
Subject: R: organism abbreviations (SPIA package)



Dear Jing,

please take a look at this page:

http://www.genome.jp/kegg/catalog/org_list.html

Hope it helps,
Marco

--
Marco Manca, MD
University of Maastricht
Faculty of Health, Medicine and Life Sciences (FHML)
Cardiovascular Research Institute (CARIM)

Mailing address: PO Box 616, 6200 MD Maastricht (The Netherlands)
Visiting address: Experimental Vascular Pathology group, Dept of Pathology - Room5.H2.032,  Maastricht University Medical Center, P. Debyelaan 25, 6229  HX Maastricht

E-mail: m.manca at maastrichtuniversity.nl
Office telephone: +31(0)433874633
Personal mobile: +31(0)626441205
Twitter: @markomanka


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Da: bioconductor-bounces at r-project.org [bioconductor-bounces at r-project.org] per conto di Jing Huang [huangji at ohsu.edu]
Inviato: martedì 23 agosto 2011 20.44
A: 'bioconductor at r-project.org'
Oggetto: [BioC] organism abbreviations (SPIA package)

Dear All members,

I am analyzing a mouse microarray data by using SPIA package. At the end, I need to input an organism name so the package can recognize it.

res=spia(de=HIF1a,all=HIF1a1,organism="hsa",nB=2000,plots=F,beta=NULL,combine="fisher",verbose=F)

“hsa” represent human sample. I am not sure what should I input in for mouse sample.
There is a table listed on this website: http://bioinformaticsprb.med.wayne.edu/SPIA

I don’t understand these abbreviation. Can somebody help me on this?

Many Thanks

Jing

Oregon


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