MProbe: computer aided probe design for oligonucleotide microarrays.
The present work describes a complete probe design software system for oligonucleotide microarrays based on Kane's research on probe sensitivity and specificity (Kane's rule). Combining Kane's rule and traditional criteria for probe design we constructed MProbe, the software system for oligonucleotide microarrays using Java. The general criteria for probe design are: (1) probes may have different lengths that range from 20 to 100 bases; (2) they should have a similar melting temperature (Tm) or GC content; (3) they should not contain stable secondary structures; and (4) they abide by Kane's rule.
Li
Wuju
W
Beijing Institute of Basic Medical Sciences, Beijing, PR China. wujuli@sohu.com
Huang
Jian
J
Fan
Ming
M
Wang
Shenqi
S
D019295:Computational Biology; D017076:Computer-Aided Design; D015342:DNA Probes / Q000235:genetics*; D015195:Drug Design; D020411:Oligonucleotide Array Sequence Analysis / Q000706:statistics & numerical data*; D012984:Software
D015342:DNA Probes