Patent ID: 7745117
Filing Date: 2010-06-29
Classification: C12Q

Abstract:
1. A method of making a hybridization probe the method comprising: receiving a target-specific hybridization sequence identified by: a) selecting a candidate target nucleotide sequence in a subject nucleotide sequence; b) identifying one or more interfering nucleotide sequences, wherein the interfering nucleotide sequences have at least a predetermined number of sequential nucleotides in common with the candidate target nucleotide sequence; c) identifying a first complementary nucleotide sequence to the target nucleotide sequence; d) determining a set of replacement positions P e) creating a set of second complementary nucleotide sequences by replacing each G at the replacement position with a nucleotide selected from the group consisting of T/U, C, and A, wherein each member of the set of second complementary nucleotide sequences has a single G replaced; f) characterizing the amount of “target-second complementary nucleotide sequence” hybrid formed when the target and second complementary nucleotide sequences are combined in the presence of potentially interfering sequences; g) identifying the second complementary nucleotide sequence as a symbolic representation of a target-specific hybridization sequence if the amount of “target-second complementary nucleotide sequence” hybrid is greater than a predetermined value; h) determining a set of replacement positions P i) creating the set of second complementary nucleotide sequences by replacing C or A or T/U identified in step h) at the replacement position with a non-complementary nucleotide; j) characterizing the amount of “target-second complementary nucleotide sequence” hybrid formed when the target and second complementary nucleotide sequences are combined in the presence of potentially interfering sequences; and k) identifying the second complementary nucleotide sequence as the symbolic representation of a target specific hybridization sequence if the amount of “target-second complementary nucleotide sequence” hybrid is greater than a predetermined value, and generating an actual nucleotide sequence that is incorporated in the hybridization probe.