Patent ID: 8168385

Claim:
A method of sample analysis, comprising: a) separately ligating an oligonucleotide tag to each of a plurality of samples that comprise fragmented genomic DNA to produce a plurality of adaptor-ligated samples, wherein: i. each of said samples is made from a different source; ii. each of said samples is ligated to a different oligonucleotide tag; iii. each oligonucleotide tag comprises at least one word comprising a unique nucleotide sequence that distinguishes said oligonucleotide tag from other oligonucleotide tags; and iv. each adaptor-ligated sample comprises adaptor-ligated genomic fragments that contain an adaptor and a genomic fragment; b) pooling said plurality of adaptor-ligated samples to make a pooled sample; c) isolating from said pooled sample adaptor-ligated genomic fragments that correspond to one or more genomic loci, thereby producing isolated fragments; and d) sequencing an isolated fragment of (c) to obtain: i. the unique nucleotide sequence of an oligonucleotide tag; and ii. the nucleotide sequence of at least part of a genomic fragment; wherein the unique nucleotide sequence of said isolated fragment identifies from which of said plurality of different polynucleotide samples said isolated fragment is derived.