	US 7,552,013 B2
	Ratio-based oligonucleotide probe selection
David Dorris, Glenview, Ill. (US); Abhijit Mazumder, Buffalo Grove, Ill. (US); and Richard D. Shippy, Scottsdale, Ariz. (US)
Assigned to GE Healthcare Bio-Sciences AB, Uppsala (Sweden)
Filed on Mar. 15, 2006, as Appl. No. 11/375,981.
Application 11/375981 is a division of application No. 09/921045, filed on Aug. 02, 2001, granted, now 7,047,141.
Claims priority of provisional application 60/278074, filed on Mar. 22, 2001.
Prior Publication US 2006/0155484 A1, Jul. 13, 2006
Int. Cl. G06F 19/00 (2006.01); C12Q 1/68 (2006.01)

U.S. Cl. 702—19 [435/6]

2 Claims

1. A method of making an oligonucleotide array, comprising the steps of:

a) hybridizing three or more candidate probes comprising a nucleic acid sequence with a first composition comprising the target nucleic acid sequence;

b) determining a first hybridization signal for each candidate probe;

c) hybridizing the three or more candidate probes with a second and different composition comprising the target nucleic acid sequence;

d) determining a second hybridization signal for each candidate probe;

e) calculating a hybridization signal ratio of the first hybridization signal to the second hybridization signal for each candidate probe;

f) calculating an average hybridization signal ratio for the three or more candidate probes;

g) selecting the candidate probe by comparing the candidate probe's hybridization signal ratio to the average hybridization signal ratio and choosing the candidate probe having a hybridization signal ratio closest to the average hybridization signal ratio as a first probe; and

h) constructing an oligonucleotide array comprising a probe comprising the nucleic acid sequence of the first probe.