	US 12,460,261 B2
	Compositions and methods for nucleic acid sequencing
Eli N. Glezer, Del Mar, CA (US); Mohammad Vatankhah Varnosfaderani, San Marcos, CA (US); Daan Witters, San Diego, CA (US); and Vahid Karimkhani, San Diego, CA (US)
Assigned to Singular Genomics Systems, Inc., San Diego, CA (US)
Filed by Singular Genomics Systems Inc., San Diego, CA (US)
Filed on Dec. 19, 2024, as Appl. No. 18/988,274.
Application 18/988,274 is a continuation of application No. 17/542,343, filed on Dec. 3, 2021, granted, now 12,227,799.
Application 17/542,343 is a continuation of application No. 17/030,886, filed on Sep. 24, 2020, granted, now 11,236,387, issued on Feb. 1, 2022.
Application 17/030,886 is a continuation of application No. PCT/US2020/017060, filed on Feb. 6, 2020.
Claims priority of provisional application 62/802,062, filed on Feb. 6, 2019.
Prior Publication US 2025/0122560 A1, Apr. 17, 2025
This patent is subject to a terminal disclaimer.
Int. Cl. C12Q 1/6869 (2018.01); C12Q 1/6844 (2018.01); C12Q 1/6874 (2018.01); G01N 33/53 (2006.01); G01N 33/544 (2006.01)

CPC C12Q 1/6869 (2013.01) [C12Q 1/6844 (2013.01); C12Q 1/6874 (2013.01); G01N 33/5308 (2013.01); G01N 33/544 (2013.01); C12Q 2533/101 (2013.01); C12Q 2565/601 (2013.01)]

20 Claims

1. A method of detecting polynucleotides in a polymer scaffold, the method comprising:

(a) amplifying polynucleotides to produce discrete amplicon clusters within a three-dimensional polymer scaffold, wherein the amplicons are covalently bound to the polymer scaffold;

(b) contacting the polymer scaffold with a plurality of fluorescently labeled molecules and, within two or more discrete amplicon clusters, binding a fluorescently labeled molecule to a nucleic acid molecule in the amplicon cluster;