[BioC] Papers mentioning duplicate spots

[Wolfgang Huber]

Hi Gordon,

see also the paper below. We had duplicate spots per array, and 
constructed a test statistic that adjusted for the correlations between 
them.

Best wishes
  Wolfgang


Genome Res. 2001 Nov;11(11):1861-70.
Identification and classification of differentially expressed genes in 
renal cell carcinoma by expression profiling on a global human 
31,500-element cDNA array.
Boer JM, Huber WK, Sultmann H, Wilmer F, von Heydebreck A, Haas S, Korn 
B, Gunawan B, Vente A, Fuzesi L, Vingron M, Poustka A.
Department of Molecular Genome Analysis, German Cancer Research Center, 
Heidelberg, Germany.

PMID: 11691851 [PubMed - indexed for MEDLINE]
http://www.genome.org/cgi/content/full/11/11/1861


> Date: Tue, 10 Feb 2004 09:02:44 +1100
> From: Gordon Smyth <smyth at wehi.edu.au>
> Subject: [BioC] Papers mentioning duplicate spots
> To: BioC Mailing List <bioconductor at stat.math.ethz.ch>
> Message-ID: <6.0.1.1.1.20040210085839.02907888 at imaphost.wehi.edu.au>
> Content-Type: text/plain; charset="us-ascii"; format=flowed
> 
> I am looking for references to published papers on microarrays which
> mention duplicate spots, i.e., replicate spots on the same array containing
> the same probe. The treatment of the duplicate spots can be very brief,
> e.g., just to say that log-ratios from duplicate spots were averaged before
> further analysis. I am particularly after papers in mainline biological
> journals. Any references would be much appreciated.
> 
> Thanks a lot
> Gordon
> 

-------------------------------------
Wolfgang Huber
Division of Molecular Genome Analysis
German Cancer Research Center
Heidelberg, Germany
Phone: +49 6221 424709
Fax:   +49 6221 42524709
Http:  www.dkfz.de/abt0840/whuber