Minimally cross-hybridizing sets of oligonucleotide tags
First Claim
1. A repertoire of oligonucleotide tags, wherein the oligonucleotide tags of the repertoire are of the form:
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space="preserve" listing-type="equation">S.sub.1 S.sub.2 S.sub.3 . . . S.sub.nwherein each of S1 through Sn are subunits consisting of an oligonucleotide having a length from three to six nucleotides and being selected from a minimally cross-hybridizing set, wherein a subunit of the set and a complement of any other subunit of the set would have at least two mismatches; and
n is in the range of from 4 to 10.
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Abstract
The invention provides a method of tracking, identifying, and/or sorting classes or subpopulations of molecules by the use of oligonucleotide tags. Oligonucleotide tags of the invention each consist of a plurality of subunits 3 to 6 nucleotides in length selected from a minimally cross-hybridizing set. A subunit of a minimally cross-hybridizing set forms a duplex or triplex having two or more mismatches with the complement of any other subunit of the same set. The number of oligonucleotide tags available in a particular embodiment depends on the number of subunits per tag and on the length of the subunit. An important aspect of the invention is the use of the oligonucleotide tags for sorting polynucleotides by specifically hybridizing tags attached to the polynucleotides to their complements on solid phase supports. This embodiment provides a readily automated system for manipulating and sorting polynucleotides, particularly useful in large-scale parallel operations, such as large-scale DNA sequencing, mRNA fingerprinting, and the like, wherein many target polynucleotides or many segments of a single target polynucleotide are sequenced simultaneously.
397 Citations
4 Claims
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1. A repertoire of oligonucleotide tags, wherein the oligonucleotide tags of the repertoire are of the form:
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space="preserve" listing-type="equation">S.sub.1 S.sub.2 S.sub.3 . . . S.sub.nwherein each of S1 through Sn are subunits consisting of an oligonucleotide having a length from three to six nucleotides and being selected from a minimally cross-hybridizing set, wherein a subunit of the set and a complement of any other subunit of the set would have at least two mismatches; and n is in the range of from 4 to 10. - View Dependent Claims (2)
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3. A repertoire of cloning vectors for attaching oligonucleotide tags to polynucleotides, wherein each of the vectors comprises a double stranded element corresponding to an oligonucleotide tag of the form:
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space="preserve" listing-type="equation">S.sub.1 S.sub.2 S.sub.3 . . . S.sub.nwherein each of S1 through Sn are subunits consisting of an oligonculeotide having a length from three to six nucleotides and being selected from a minimally cross-hybridizing set, wherein a subunit of the set and a complement of any other subunit of the set would have at least two mismatches; and n is in the range of from 4 to 10. - View Dependent Claims (4)
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Specification