Patent SG-11201408128W-A (SG)
Title: Uniquely tagged rearranged adaptive immune receptor genes in a complex gene set
Inventor: ROBINS HARLAN S
IPC: C12Q1/68
Filed: 2013-06-14
Abstract: (12) INTERNATIONAL APPLICATION PUBLISHED UNDER THE PATENT COOPERATION TREATY (PCT) (19) World Intellectual Property Organization International Bureau (43) International Publication Date 19 December 2013 (19.12.2013) WIPOIPCT (10) International Publication Number WO 2013/188831 A1 (51) International Patent Classification: C12Q 1/68 (2006.01) (21) International Application Number: (22) International Filing Date: (25) Filing Language: (26) Publication Language: PCT/US2013/045994 14 June 2013 (14.06.2013) English English (30) Priority Data: 61/660,665 61/789,408 15 June 2012 (15.06.2012) US 15 March 2013 (15.03.2013) US (71) Applicant: ADAPTIVE BIOTECHNOLOGIES COR­ PORATION [US/US]; 1551 Eastlake Avenue East, Suite 200, Seattle, WA 98102 (US). (72) Inventor: ROBINS, Harlan, S c/o Adaptive Biotechno­ logies Corporation, 1551 Eastlake Avenue East, Suite 200, Seattle, WA 98102 (US). (74) Agents: LEE, Michelle et al.; Fenwick & West LLP, Silic­ on Valley Center, 801 California Street, Mountain View, CA 94041 (US). (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. (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, UG, ZM, ZW), Eurasian (AM, AZ, BY, KG, KZ, RU, TJ, 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). Declarations under Rule 4.17: — of inventorship (Rule 4.17(iv)) Published: — with international search report (Art. 21(3)) — before the expiration of the time limit for amending the claims and to be republished in the event of receipt of amendments (Rule 48.2(h)) — with sequence listing part of description (Rule 5.2(a)) (54) Title: UNIQUELY TAGGED REARRANGED ADAPTIVE IMMUNE RECEPTOR GENES IN A COMPLEX GENE SET 110a DNA 110b 111 103 Vpr ifid U1 . BC1 . Jpr 105 m oo oo oo i-H cn i-H o CJ NDN T V ^ TWO (2) CYCUES OF PCR 106 108 107 1.) REMOVE RESIDUAL PRIMERS 2.) AMPLIFY WITH 01, U2 PRIMERS ^ UZ t=t Ul • BCl \" Jpr \" JNDNV \" Vpr ' UZ SEQUENCE (57) Abstract: Compositions and methods are disclosed for uniquely tagging each rearranged gene segment that encodes a T cell re - ceptor (TCR) and/or an immunoglobulin (Ig), in a DNA (or mRNA or cDNA reverse transcribed therefrom) sample from lymphoid cells. These and related embodiments permit accurate, high throughput quantification of distinct TCR and/or Ig encoding sequences. Also provided are compositions and methods for quantitatively sequencing the genes that encode both chains of TCR a or Ig het- erodimer in a single cell, for example, to characterize the degree of T or B cell clonality in a sample.