RT Journal
A1 Barczak, Andrea
A1 Rodriguez, Madeleine Willkom
A1 Hanspers, Kristina
A1 Koth, Laura L.
A1 Tai, Yu Chuan
A1 Bolstad, Benjamin M.
A1 Speed, Terence P.
A1 Erle, David J.
T1 Spotted Long Oligonucleotide Arrays for Human Gene Expression Analysis
JF Genome Research 
JO Genome Research 
YR 2003 
FD July 01 
VO 13 
IS 7 
SP 1775 
OP 1785 
DO 10.1101/gr.1048803 
UL http://genome.cshlp.org/content/13/7/1775.abstract 
AB DNA microarrays produced by deposition (or `spotting')of a single long
 oligonucleotide probe for each gene may be an attractive alternative to other
 types of arrays. We produced spotted oligonucleotide arrays using two large
 collections of ∼70-mer probes, and used these arrays to analyze gene
 expression in two dissimilar human RNA samples. These samples were also
 analyzed using arrays produced by in situ synthesis of sets of multiple short
 (25-mer)oligonucleotides for each gene (Affymetrix GeneChips). We compared
 expression measurements for 7344 genes that were represented in both long
 oligonucleotide probe collections and the in situ-synthesized 25-mer arrays.
 We found strong correlations (r = 0.8–0.9)between relative gene
 expression measurements made with spotted long oligonucleotide probes and in
 situ-synthesized 25-mer probe sets. Spotted long oligonucleotide arrays were
 suitable for use with both unamplified cDNA and amplified RNA targets, and are
 a cost-effective alternative for many functional genomics applications. Most
 previously reported evaluations of microarray technologies have focused on
 expression measurements made on a relatively small number of genes. The
 approach described here involves far more gene expression measurements and
 provides a useful method for comparing existing and emerging techniques for
 genome-scale expression analysis.