Opinion ID: 3173494
Heading Depth: 3
Heading Rank: 3

Heading: determining the sequence of the double

Text: stranded nucleic acid sample and the posi- tion of the at least one modified base in the sequence of the double stranded nucleic ac- id sample by comparing the sequences of the forward and reverse strands of the cir- cular pair-locked molecule, wherein at least one modified base in the double- stranded nucleic sample is paired with a 1 As indicated infra, the sole count of the interference is identical to claim 24 of the ’630 patent. 6 INDUSTRIAL TECH. RESEARCH INST. v. PAC. BIOSCIENCES The ’630 patent describes the bisulfite conversion of a CPLM as one embodiment of the methods for detecting modified bases, id. col. 23 ll. 44–65, col. 26, ll. 10–23, and illustrates in Figure 5B, which is shown below, a bisulfitetreated CPLM with matched mC-G and mismatched G-U base pairs, id. col. 6 ll. 16–23. Id. fig.5B. Additionally, claim 23 of the ’630 patent requires that the forward and reverse strands of the double-stranded nucleic acid be locked together by two nucleic acid inserts of known sequences to form the CPLM. See id. fig.3A & 3B (depicting a CPLM made from the forward and reverse strands 11 and 12 and two inserts 13 and 14). Because sequencing data from a given experiment may not be 100% accurate, claim 23 provides that the CPLM is sequenced multiple times; that each set of the sequence data of the inserts is scored by comparing the measured sequence with the known sequence, id. col. 47 ll. 15–18; and that a given set of the sequence data of the forward or reverse strand is then accepted or rejected based on “the scores of one or both of the sequences of the inserts immediately upstream and downstream of the sample sequences,” id. col. 47 ll. 19–25. Claim 23 depends from claim 1; both claims are re- produced below.
ble-stranded nucleic acid sample and a posi- INDUS. TECH. RESEARCH INST. v. PAC. BIOSCIENCES 7 tion of at least one modified base in the se- quence, comprising: a. locking the forward and reverse strands together to form a circular pair-locked molecule; b. obtaining sequence data of the circular pair-locked molecule via single molecule sequencing, wherein the sequence data comprises sequences of the forward and reverse strands of the circular pair-locked molecule; c. determining the sequence of the double- stranded nucleic acid sample by comparing the sequences of the forward and reverse strands of the circular pair-locked mole- cule;