A protocol for simultaneous high-sensitivity genotyping and chromatin accessibility profiling in single cells
Single-cell assay for transposase-accessible chromatin with sequencing (scATAC-seq) resolves the heterogeneity of epigenetic states across cells but does not typically capture exonic mutations, which limits our knowledge of how somatic mutations alter chromatin landscapes. Here, we present a plate-b...
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| Main Authors: | , , , , |
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| Format: | Article (Journal) |
| Language: | English |
| Published: |
15 December 2023
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| In: |
STAR Protocols
Year: 2023, Volume: 4, Issue: 4, Pages: 1-53 |
| ISSN: | 2666-1667 |
| DOI: | 10.1016/j.xpro.2023.102641 |
| Online Access: | Verlag, lizenzpflichtig, Volltext: https://doi.org/10.1016/j.xpro.2023.102641 Verlag, lizenzpflichtig, Volltext: https://www.sciencedirect.com/science/article/pii/S2666166723006081 
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| Author Notes: | Sven Turkalj, Niels Asger Jakobsen, Angus Groom, Felix A. Radtke, and Paresh Vyas |
| Summary: | Single-cell assay for transposase-accessible chromatin with sequencing (scATAC-seq) resolves the heterogeneity of epigenetic states across cells but does not typically capture exonic mutations, which limits our knowledge of how somatic mutations alter chromatin landscapes. Here, we present a plate-based approach coupling high-sensitivity genotyping of genomic loci with high-content scATAC-seq libraries from the same single cells. We first describe steps for optimization of genotyping primers, followed by detailed guidance on the preparation of both scATAC-seq and single-cell genotyping libraries, fully automated on high-throughput liquid handling platforms. For complete details on the use and execution of this protocol, please refer to Turkalj, Jakobsen et al.1 |
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| Item Description: | Online verfügbar: 26. Oktober 2023 Gesehen am 23.02.2026 |
| Physical Description: | Online Resource |
| ISSN: | 2666-1667 |
| DOI: | 10.1016/j.xpro.2023.102641 |