Methods and compositions for multimodal in situ analysis
Assignee10x Genomics, Inc.
InventorFelice Alessio BAVA
Life of this patent
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Abstract
The present disclosure in some aspects relates to methods for assessing multi-modal in situ transcriptomics by combining microscopy and sequencing technologies and methods. In some aspects, the methods provided herein involve analyzing one or more analyte panels in a sample using a first imaging modality or set of imaging modalities. Based on said analysis, a different analyte panel and/or one or more different imaging modalities can be selected for subsequent analysis.
Claims31
A method for analyzing a sample, comprising:
- a) contacting a sample with a plurality of barcoded probe sets, each for analyzing an analyte panel;
- b) contacting the sample with a first plurality of detectably labeled oligonucleotides DO1 for analyzing one or more sets in the barcoded probe sets;
- c) detecting the first plurality of detectably labeled oligonucleotides using a microscope at a first magnification M1,
- d) analyzing the one or more analyte panels corresponding to the one or more barcoded probe sets in a first region R1 of the sample;
- and
- e) based on the analyzing in d):
- i) selecting a second plurality of detectably labeled oligonucleotides DO2 for analyzing another one or more sets of the plurality of barcoded probe sets, wherein the sample or a region thereof is contacted with DO2,
- ii) selecting a second magnification M2, wherein the sample or a region thereof is imaged using the microscope at M2, and/or
- iii) selecting a second region R2 of the sample, wherein one or more analyte panels in R2 are analyzed,
- wherein one or more of DO2, M2, and R2 is different from DO1, M1, and R1, respectively.
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A method for analyzing a sample, comprising:
- a) contacting a sample with a plurality of barcoded probe sets, each set for analyzing a different biomarker panel,
- b) contacting the sample with a first plurality of detectably labeled oligonucleotides for analyzing a first set of the plurality of barcoded probe sets,
- c) imaging the sample using a microscope at a first magnification, wherein a first biomarker panel corresponding to the first set is detected in a first region of the sample,
- d) contacting the sample with a second plurality of detectably labeled oligonucleotides for analyzing a second set of the plurality of barcoded probe sets, and
- e) imaging a second region of the sample using the microscope at a second magnification, wherein a second biomarker panel corresponding to the second set is detected in a second region of the sample, wherein the second region is a sub-region of the first region and/or the second magnification is higher than the first magnification.
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Dependencies are inferred from the claim text.