Short shared nucleotide sequences
OwnerEvgueni V. Ananievinventor
Life of this patent
Estimating the term…
Abstract
A method of selecting sets of short shared nucleotide sequences from amongst members of nucleic acid populations and identifying subsets of those selected short shared nucleotide sequences that differentiate those members from one another. Probes corresponding to the sets of short shared nucleotide sequences can be synthesized and utilized, inter alia, to detect target nucleic acids in a sample population, to provide expression profiles, or to identify polymorphisms of a gene. The invention also includes integrated systems for performing various steps involved in the method and certain probe compositions.
Claims21
A method of identifying differentiating subsets of short shared nucleotide sequences or of differentiating at least one target nucleic acid sequence from other members of a first nucleic acid population, the method comprising:
- selecting a set of short shared nucleotide sequences from the members of the first nucleic acid population, wherein each short shared nucleotide sequence comprises a nucleic acid subsequence that is common to at least two members of the first nucleic acid population;
- and,
- identifying differentiating subsets of the set of short shared nucleotide sequences, wherein each differentiating subset comprises a subset of the set of short shared nucleotide sequences which differentiates an individual member of the first nucleic acid population from the other members of the first nucleic population;
- or,
- detecting one or more differentiating subsets of the set of short shared nucleotide sequences that correspond to the at least one target nucleic acid sequence, thereby differentiating the at least one target nucleic acid sequence from the other members of the first nucleic acid population.
An integrated system comprising a computer or computer readable medium comprising a database comprising at least one sequence record comprising a plurality of non-homologous character strings corresponding to members of at least one nucleic acid population and at least one derivative sequence record comprising at least one set of short shared nucleotide sequences, the integrated system further comprising a user input interface allowing the user to selectively view the at least one sequence record.
A composition comprising one or more libraries selected from:
- a library of differentiating nucleic acid probes corresponding to at least one set of short shared nucleotide sequences, wherein the at least one set of short shared nucleotide sequences collectively comprises a plurality of differentiating nucleic acid probe member types, wherein differentiating subsets of the plurality of differentiating nucleic acid probe member types differentiate individual members of a nucleic acid population from each other, and
- a library of competitor differentiating nucleic acid probes corresponding to at least one set of nucleic acid sequences that are complementary to at least one set of short shared nucleotide sequences.
Dependencies are inferred from the claim text.