Nucleic acid analysis using sequence tokens
First Claim
1. A method of tagging a plurality of populations of polynucleotides each with a unique sequence token tag, comprising:
- generating a plurality of unique sequence token tags;
dividing the polynucleotides of each of said populations of polynucleotides into at least two non-overlapping nucleic acid segments; and
ligating a unique sequence token tag to the at least two non-overlapping nucleic acid segments of each of said populations of polynucleotides to provide a plurality of populations of polynucleotides each tagged with a unique sequence token tag,wherein each unique sequence token tag is used to tag only one of said populations of polynucleotides.
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Abstract
The present invention provides methods and compositions for tagging nucleic acid sequence fragments, e.g., a set of nucleic acid sequence fragments from a single genome, with one or more unique members of a collection of oligonucleotide tags, or sequence tokens, which, in turn, can be identified using a variety of readout platforms. As a general rule, a given sequence token is used once and only once in any tag sequence. In addition, the present invention also provides methods for using the sequence tokens to efficiently determine variations in nucleotide sequences in the associated nucleic acid sequence fragments.
569 Citations
21 Claims
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1. A method of tagging a plurality of populations of polynucleotides each with a unique sequence token tag, comprising:
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generating a plurality of unique sequence token tags; dividing the polynucleotides of each of said populations of polynucleotides into at least two non-overlapping nucleic acid segments; and ligating a unique sequence token tag to the at least two non-overlapping nucleic acid segments of each of said populations of polynucleotides to provide a plurality of populations of polynucleotides each tagged with a unique sequence token tag, wherein each unique sequence token tag is used to tag only one of said populations of polynucleotides. - View Dependent Claims (2, 3, 4, 5, 6, 12, 13, 14, 15, 16)
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7. A method of tagging a plurality of genomic DNA samples from a plurality of subjects each with a unique sequence token tag, comprising:
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generating a plurality of unique sequence token tags; dividing the genomic DNA of each of said plurality of DNA samples into at least two non-overlapping nucleic acid segments; and ligating a unique sequence token tag to the at least two non-overlapping nucleic acid segments of each of said genomic DNA samples to provide a plurality of genomic DNA samples from a plurality of subjects each tagged with a unique sequence token tag, wherein each unique sequence token tag is used to tag only the genomic DNA from one of said plurality of subjects. - View Dependent Claims (8, 9, 10, 11, 17, 18, 19, 20, 21)
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Specification