Indirect measurements of differential gene expression with cDNA microarrays

被引:9
作者
Belbin, TJ
Gaspar, J
Haigentz, M
Perez-Soler, R
Keller, SM
Prystowsky, MB
Childs, G
Socci, ND
机构
[1] Montefiore Med Ctr, Albert Einstein Coll Med, Dept Pathol, Bronx, NY 10461 USA
[2] Montefiore Med Ctr, Albert Einstein Coll Med, Seaver Ctr Computat Biol, Bronx, NY 10461 USA
关键词
D O I
10.2144/04362MT02
中图分类号
Q5 [生物化学];
学科分类号
071010 ; 081704 ;
摘要
The use of universal RNA reference sets is an increasingly common approach to molecular classification studies with cDNA microarrays. Here we evaluated the reliability of indirect measurements of fluorescence ratios with a common RNA reference as a means of identifying differentially expressed genes. Comparisons of direct and indirect measures of differential gene expression showed a strong overall correlation in fluorescence ratio measurements but also a high degree of false positives in our indirect measurements. These results indicated that the application of more stringent ratio filters may be required when assessing differential gene expression utilizing a common RNA reference in classification studies.
引用
收藏
页码:310 / 314
页数:5
相关论文
共 7 条
[1]  
*BD BIOSC CLONT, 2002, CLONTECHNIQUES, V17, P6
[2]  
Novoradovskaya N., 2000, Strategies, V13, P121
[3]   Production of bulk amounts of universal RNA for DNA microarrays [J].
Puskás, LG ;
Zvara, A ;
Hackler, L ;
Micsik, T ;
van Hummelen, P .
BIOTECHNIQUES, 2002, 33 (04) :898-+
[4]   Issues in cDNA microarray analysis: quality filtering, channel normalization, models of variations and assessment of gene effects [J].
Tseng, GC ;
Oh, MK ;
Rohlin, L ;
Liao, JC ;
Wong, WH .
NUCLEIC ACIDS RESEARCH, 2001, 29 (12) :2549-2557
[5]  
Yang IV, 2002, GENOME BIOL, V3
[6]   Normalization for cDNA microarray data: a robust composite method addressing single and multiple slide systematic variation [J].
Yang, YH ;
Dudoit, S ;
Luu, P ;
Lin, DM ;
Peng, V ;
Ngai, J ;
Speed, TP .
NUCLEIC ACIDS RESEARCH, 2002, 30 (04) :e15
[7]  
YANG YH, 2002, DNA MICROARRAYS MOL