US 12,030,057 B2
Oligonucleotide encoded chemical libraries
Kandaswamy Vijayan, San Diego, CA (US); Andrew Boyd MacConnell, San Diego, CA (US); and Joseph Franklin Rokicki, San Diego, CA (US)
Assigned to Plexium, Inc., San Diego, CA (US)
Filed by Plexium, Inc., San Diego, CA (US)
Filed on Jan. 6, 2023, as Appl. No. 18/151,343.
Application 18/151,343 is a continuation of application No. 17/236,283, filed on Apr. 21, 2021, granted, now 11,577,249.
Application 17/236,283 is a continuation of application No. 16/140,494, filed on Sep. 24, 2018, granted, now 11,084,037.
Claims priority of provisional application 62/562,912, filed on Sep. 25, 2017.
Claims priority of provisional application 62/562,905, filed on Sep. 25, 2017.
Prior Publication US 2023/0234065 A1, Jul. 27, 2023
This patent is subject to a terminal disclaimer.
Int. Cl. C40B 30/06 (2006.01); B01L 3/00 (2006.01); C12N 15/10 (2006.01); C12Q 1/6869 (2018.01); C12Q 1/6876 (2018.01); C40B 30/04 (2006.01); C40B 50/04 (2006.01); C40B 50/14 (2006.01); C40B 50/16 (2006.01)
CPC B01L 3/50853 (2013.01) [C12N 15/1034 (2013.01); C12N 15/1065 (2013.01); C12N 15/1068 (2013.01); C12N 15/1075 (2013.01); C12Q 1/6869 (2013.01); C12Q 1/6876 (2013.01); C40B 30/04 (2013.01); C40B 30/06 (2013.01); C40B 50/04 (2013.01); C40B 50/14 (2013.01); C40B 50/16 (2013.01); B01L 2300/0829 (2013.01); C12Q 2600/16 (2013.01)] 20 Claims
 
1. A method for identifying a transcriptome change in a cell induced by a compound, the method comprising:
a) generating an assay array wherein said array comprises:
i) a plurality of confined volumes wherein each confined volume is separated from the other confined volumes and wherein each confined volume comprises at least one cell;
ii) a plurality of beads where each bead comprises the compound and a plurality of first functionalized oligonucleotides, wherein each first functionalized oligonucleotide comprises a capture sequence and an oligonucleotide portion that encodes a structure of the compound or the synthetic steps used to make said compound, wherein a single bead is disposed in each confined volume;
b) contacting the at least one cell in each confined volume with the compound released into the confined volume from the bead; and
c) capturing RNA from the at least one cell in each confined volume by lysing the at least one cell and contacting the RNA with the capture sequence on said bead or with a second functionalized oligonucleotide.