820 FIG. 8 (12) INTERNATIONAL APPLICATION PUBLISHED UNDER THE PATENT COOPERATION TREATY (PCT) (19) World Intellectual Property Organization International Bureau (43) International Publication Date 23 May 2019 (23.05.2019) WIPO I PCT 111111111111110111111111111111101111101001111111111111111111111111111011111011110111111 (10) International Publication Number WO 2019/099908 Al (51) International Patent Classification: C12Q 1/6806 (2018.01) G16B 20/00 (2019.01) G16B 35/00 (2019.01) (21) International Application Number: PCT/US2018/061629 (74) (22) International Filing Date: 16 November 2018 (16.11.2018) (25) Filing Language: English (26) Publication Language: English (30) Priority Data: 62/587,634 17 November 2017 (17.11.2017) US (71) Applicant: 10X GENOMICS, INC. [US/US]; 7068 Koll Center Parkway, Suite 401, Pleasanton, California 94566 (US). (72) Inventors: BHARADWAJ, Rajiv; 7068 Koll Center Park- way, Suite 401, Pleasanton, California 94566 (US). SAX- ONOV, Serge; 7068 Koll Center Parkway, Suite 401, Pleasanton, California 94566 (US). Agent: YANDELL-ZHAO, Margaret A.; WILSON SONSINI GOODRICH & ROSATI, 650 Page Mill Road, Palo Alto, California 94304-1050 (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, DJ, DK, DM, DO, DZ, EC, EE, EG, ES, FI, GB, GD, GE, GH, GM, GT, HN, HR, HU, ID, IL, IN, IR, IS, JO, JP, KE, KG, KH, KN, KP, KR, KW, KZ, LA, LC, LK, LR, LS, 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, SA, (54) Title: METHODS AND SYSTEMS FOR ASSOCIATING PHYSICAL AND GENETIC PROPERTIES OF BIOLOGICAL = PARTICLES Got ON ON ON O ON O C (57) : Provided herein are methods and systems for processing a nucleic acid molecule from a biological particle (e.g., cell). A plurality of partitions (e.g., droplets) may be generated such that partitions of the plurality of partitions each include a biological particle (e.g., cell) comprising the nucleic acid molecule and a particle (e.g., bead). The partitions can be processed (e.g., imaged) to obtain one or more physical and/or optical properties of their respective biological particles. The nucleic acid molecules included in the partitions can be barcoded and sequenced (e.g., using nucleic acid barcode molecules coupled to the particles of the partitions) to generate nucleic acid sequences of the nucleic acid molecules. The nucleic acid sequences can be electronically associated with the one or more optical properties of the biological particles. [Continued on next page] WO 2019/099908 Al HINIONOIMEIHMEIMEN001 MENNEHIMOIMEMEMIE 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, ST, 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). 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))
METHODS AND SYSTEMS FOR ASSOCIATING PHYSICAL AND GENETIC PROPERTIES OF BIOLOGICAL PARTICLES