Patent ID: 11898198
Assignee: ILLUMINA, INC.
Field: Computer technology (Electrical engineering)
Classification: CPC C  G | IPC C  G

Claim 17:
18. A method for sequencing nucleic acid molecules from a sample, comprising
(a) applying sequencing adapters to DNA fragments in the sample to obtain DNA-adapter products, wherein
each of the sequencing adapters comprises at least one variable-length, nonrandom unique molecular index (vNRUMI) selected from a set of variable-length, nonrandom unique molecular indices (vNRUMIs) having two or more different molecular lengths,
the set of vNRUMIs is configured to identify individual nucleic acid molecules in a sample for multiplex massively parallel sequencing, and
an edit distance between any two vNRUMIs of the set of vNRUMIs is not less than a first criterion value, wherein the first criterion value is at least two, and
edit distances among the vNRUMIs in the set of vNRUMIs are maximized by a greedy approach;

(b) amplifying the DNA-adapter products to obtain a plurality of amplified polynucleotides;
(c) sequencing the plurality of amplified polynucleotides, thereby obtaining a plurality of reads associated with the set of vNRUMIs;
(d) identifying, among the plurality of reads, reads associated with a same vNRUMI; and
(e) determining a sequence of a DNA fragment in the sample using the reads associated with the same vNRUMI.