A protocol for simultaneous high-sensitivity genotyping and chromatin accessibility profiling in single cells.
<p>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...
| Main Authors: | , , , , |
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| Format: | Journal article |
| Language: | English |
| Published: |
Cell Press
2023
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| _version_ | 1797111598172602368 |
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| author | Turkalj, S Jakobsen, NA Groom, A Radtke, FA Vyas, P |
| author_facet | Turkalj, S Jakobsen, NA Groom, A Radtke, FA Vyas, P |
| author_sort | Turkalj, S |
| collection | OXFORD |
| description | <p>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.<br>
For complete details on the use and execution of this protocol, please refer to Turkalj, Jakobsen et al.<sup>1</sup></p> |
| first_indexed | 2024-03-07T08:12:40Z |
| format | Journal article |
| id | oxford-uuid:6a0ecb87-e5f0-4e28-b079-ff257dcd2724 |
| institution | University of Oxford |
| language | English |
| last_indexed | 2024-03-07T08:12:40Z |
| publishDate | 2023 |
| publisher | Cell Press |
| record_format | dspace |
| spelling | oxford-uuid:6a0ecb87-e5f0-4e28-b079-ff257dcd27242023-12-01T17:34:23ZA protocol for simultaneous high-sensitivity genotyping and chromatin accessibility profiling in single cells.Journal articlehttp://purl.org/coar/resource_type/c_dcae04bcuuid:6a0ecb87-e5f0-4e28-b079-ff257dcd2724EnglishSymplectic ElementsCell Press2023Turkalj, SJakobsen, NAGroom, ARadtke, FAVyas, P<p>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.<br> For complete details on the use and execution of this protocol, please refer to Turkalj, Jakobsen et al.<sup>1</sup></p> |
| spellingShingle | Turkalj, S Jakobsen, NA Groom, A Radtke, FA Vyas, P A protocol for simultaneous high-sensitivity genotyping and chromatin accessibility profiling in single cells. |
| title | A protocol for simultaneous high-sensitivity genotyping and chromatin accessibility profiling in single cells. |
| title_full | A protocol for simultaneous high-sensitivity genotyping and chromatin accessibility profiling in single cells. |
| title_fullStr | A protocol for simultaneous high-sensitivity genotyping and chromatin accessibility profiling in single cells. |
| title_full_unstemmed | A protocol for simultaneous high-sensitivity genotyping and chromatin accessibility profiling in single cells. |
| title_short | A protocol for simultaneous high-sensitivity genotyping and chromatin accessibility profiling in single cells. |
| title_sort | protocol for simultaneous high sensitivity genotyping and chromatin accessibility profiling in single cells |
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