Patent SG-11201408807Y-A (SG)
Title: Tm-enhanced blocking oligonucleotides and baits for improved target enrichment and reduced off-target selection
Inventor: BEHLKE MARK AARON
IPC: C07H21/04
Filed: 2013-07-03
Abstract: (12) INTERNATIONAL APPLICATION PUBLISHED UNDER THE PATENT COOPERATION TREATY (PCT) (19) World Intellectual Property Organization International Bureau (43) International Publication Date 9 January 2014 (09.01.2014) WIPOIPCT (10) International Publication Number WO 2014/008447 A1 (51) International Patent Classification: C12N15/10 (2006.01) CI20 1/68 (2006.01) C12N15/11 (2006.01) C07H21/04 (2006.01) (21) International Application Number: (22) International Filing Date: PCT/US2013/049402 3 July 2013 (03.07.2013) (25) Filing Language: (26) Publication Language: (30) Priority Data: 61/667,919 3 July 2012 (03.07.2012) 61/745,435 21 December 2012 (21.12.2012) (71) Applicants: INTEGRATED DNA TECHNOLOGIES, INC. [US/US]; 1710 Commercial Park, Coralville, IA 52241 (US). FOUNDATION MEDICINE, INC. [US/US]; One Kendall Square, Suite B3501, Cambridge, MA 02139 (US). alville, IA 52241 (US). JAROSZ, Mirna; 962 Clark Way, Palo Alto, CA 94304 (US). ZWIRKO, Zachary; 11 Com­ monwealth Court, Apartment #5, Brighton, MA 02135 (US). LIPSON, Doron; 142 Middlesex Road, #1, Chestnut Hill, MA 02457 (US). JUHN, Frank, Soo; 85 Beals Street, Brookline, MA 02446 (US). (74) Agents: CELANDER, Daniel, W. et al.; Klintworth & Rozenblat IP LLC, 850 West Jackson Boulevard, Suite 525, Chicago, IL 60607 (US). English (81) Designated States (unless otherwise indicated, for every kind of national protection available)'. AE, AG, AL, AM, AO, AT, AU, AZ, BA, BB, BG, BH, BN, BR, BW, BY, BZ, CA, CH, CL, CN, CO, CR, CU, CZ, DE, DK, DM, DO, DZ, EC, EE, EG, ES, FI, GB, GD, GE, GH, GM, GT, HN, HR, HU, ID, IL, IN, IS, JP, KE, KG, KN, KP, KR, KZ, LA, LC, LK, LR, LS, LT, LU, LY, MA, MD, ME, MG, MK, MN, MW, MX, MY, MZ, NA, NG, NI, NO, NZ, OM, PA, PE, PG, PH, PL, PT, QA, RO, RS, RU, RW, SC, SD, SE, SG, SK, SL, SM, ST, SV, SY, TH, TJ, TM, TN, TR, TT, TZ, UA, UG, US, UZ, VC, VN, ZA, ZM, ZW. English US US (72) Inventors: BEHLKE, Mark, Aaron; 961 Timber Ridge Court, Coralville, IA 52241 (US). HAVENS, John, Robert; 8749 William Cody Drive, Evergreen, CO 80439 (US). ROSE, Scott Daniel; 1180 Mesquite Drive, Cor- (84) Designated States (unless otherwise indicated, for every kind of regional protection available)'. ARIPO (BW, GH, GM, KE, LR, LS, MW, MZ, NA, RW, SD, SL, SZ, TZ, [Continued on next page] (54) Title: TM-ENHANCED BLOCKING OLIGONUCLEOTIDES AND BAITS FOR IMPROVED TARGET ENRICHMENT AND REDUCED OFF-TARGET SELECTION GENOMIC DNA '103 (DOUBLE-STRANDED; .103 I3INGLE-STRANDED) l> 00 o o (57) Abstract: The invention is directed to modified oligonucleotide com­ positions and methods for selectively reducing unwanted nucleic acid con­ taminants and enriching for desired nucleic acid targets from complex gen­ omic nucleic acid mixtures for sequencing applications. The modified oligo­ nucleotide compositions include one or more modified groups that increase the Tm of the resultant oligonucleotide composition. -106 (HYBRID-CAPTURE) 107 (DESIRED TARGETS) JT, SEQUENCING FIG. 1 WO 2014/008447 A11 lllll llllllll II llllll III III lllll llll lllll lllll lllll III III lllll lllll llll lllllll llll llll llll UG, ZM, ZW), Eurasian (AM, AZ, BY, KG, KZ, RU, TJ, Pu TM), European (AL, AT, BE, BG, CH, CY, CZ, DE, DK, _ EE, ES, FI, FR, GB, GR, HR, HU, IE, IS, IT, LT, LU, LV, MC, MK, MT, NL, NO, PL, PT, RO, RS, SE, SI, SK, — SM, TR), OAPI (BF, BJ, CF, CG, CI, CM, GA, GN, GQ, GW, KM, ML, MR, NE, SN, TD, TG). with international search report (Art. 21(3)) with sequence listing part of description (Rule 5.2(a))