Patent ID: 11965213
Assignee: 10X GENOMICS, INC.
Field: Biotechnology (Chemistry)
Classification: CPC C | IPC C

Claim 0:
1. A method of determining a location of a mRNA expressed in an ovarian sample tissue section, the method comprising:
(a) contacting the tissue section obtained from a subject with an array comprising a plurality of capture probes, wherein a capture probe of the plurality of capture probes comprises a spatial barcode and a capture domain, wherein the plurality of capture probes hybridizes to a plurality of mRNAs expressed by an infiltrating M0 macrophage in the tissue section, wherein the plurality of mRNAs expressed by the infiltrating M0 macrophage surround an ovarian tumor in the tissue section, and wherein an mRNA of the mRNAs expressed by the infiltrating M0 macrophage is selected from the group consisting of CA1, SCARA5, and ARAF, or any combination thereof,
wherein CA1 mRNA expression is increased in the infiltrating M0 macrophage, SCARA5 mRNA expression is decreased in the infiltrating M0 macrophage, and ARAF mRNA expression is decreased in the infiltrating M0 macrophage compared to CA1 mRNA SCARA5 mRNA, and ARAF mRNA respectively, in non-M0 macrophage cells of the tissue section;
(b) hybridizing the plurality of mRNAs to the plurality of capture probes, wherein the mRNA hybridizes to the capture probe;
(c) extending the plurality of capture probes, thereby generating a plurality of extended capture probes, wherein a 3′ end of the capture probe uses the mRNA as a template to generate an extended capture probe; and
(d) sequencing (i) all or part of the plurality of extended capture probes, (ii) the spatial barcode or a complement thereof, and (iii) all or a part of a sequence corresponding to the mRNA expressed by the infiltrating M0 macrophage, or a complement thereof, and using the determined sequences of (ii) and (iii) to identify the location of the mRNA expressed by the infiltrating M0 macrophage in the ovarian sample tissue section.