Enhancing single-cell transcriptomics using interposed anchor oligonucleotide sequences
Abstract Single-cell transcriptomics, which utilises barcodes and unique molecular identifiers (UMIs) for polyA+ mRNA capture, is compromised by oligonucleotide synthesis errors. To address this, we modified the oligonucleotide capture design and integrated an interposed anchor between the barcode a...
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| Format: | Article |
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Nature Portfolio
2025-01-01
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| Series: | Communications Biology |
| Online Access: | https://doi.org/10.1038/s42003-025-07474-5 |
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| author | Jianfeng Sun Martin Philpott Danson Loi Gabriela Hoffman Jonathan Robson Neelam Mehta Eleanor Calcutt Vicki Gamble Tom Brown Tom Brown Udo Oppermann Adam P. Cribbs |
| author_facet | Jianfeng Sun Martin Philpott Danson Loi Gabriela Hoffman Jonathan Robson Neelam Mehta Eleanor Calcutt Vicki Gamble Tom Brown Tom Brown Udo Oppermann Adam P. Cribbs |
| author_sort | Jianfeng Sun |
| collection | DOAJ |
| description | Abstract Single-cell transcriptomics, which utilises barcodes and unique molecular identifiers (UMIs) for polyA+ mRNA capture, is compromised by oligonucleotide synthesis errors. To address this, we modified the oligonucleotide capture design and integrated an interposed anchor between the barcode and the UMI. This design significantly reduces the need to discard reads due to synthesis inaccuracies. Our results demonstrate that this anchor-enhanced design substantially improves gene expression profiles in droplet-based single-cell sequencing analyses. |
| format | Article |
| id | doaj-art-5249a0114df740608f89c2a41f914b8d |
| institution | Kabale University |
| issn | 2399-3642 |
| language | English |
| publishDate | 2025-01-01 |
| publisher | Nature Portfolio |
| record_format | Article |
| series | Communications Biology |
| spelling | doaj-art-5249a0114df740608f89c2a41f914b8d2025-01-19T12:35:13ZengNature PortfolioCommunications Biology2399-36422025-01-018111010.1038/s42003-025-07474-5Enhancing single-cell transcriptomics using interposed anchor oligonucleotide sequencesJianfeng Sun0Martin Philpott1Danson Loi2Gabriela Hoffman3Jonathan Robson4Neelam Mehta5Eleanor Calcutt6Vicki Gamble7Tom Brown8Tom Brown9Udo Oppermann10Adam P. Cribbs11Botnar Research Centre, Nuffield Department of Orthopaedics, Rheumatology and Musculoskeletal Sciences, National Institute of Health Research Oxford Biomedical Research Unit (BRU), University of OxfordBotnar Research Centre, Nuffield Department of Orthopaedics, Rheumatology and Musculoskeletal Sciences, National Institute of Health Research Oxford Biomedical Research Unit (BRU), University of OxfordBotnar Research Centre, Nuffield Department of Orthopaedics, Rheumatology and Musculoskeletal Sciences, National Institute of Health Research Oxford Biomedical Research Unit (BRU), University of OxfordATDBio Ltd (now part of Biotage)ATDBio Ltd (now part of Biotage)Botnar Research Centre, Nuffield Department of Orthopaedics, Rheumatology and Musculoskeletal Sciences, National Institute of Health Research Oxford Biomedical Research Unit (BRU), University of OxfordBotnar Research Centre, Nuffield Department of Orthopaedics, Rheumatology and Musculoskeletal Sciences, National Institute of Health Research Oxford Biomedical Research Unit (BRU), University of OxfordBotnar Research Centre, Nuffield Department of Orthopaedics, Rheumatology and Musculoskeletal Sciences, National Institute of Health Research Oxford Biomedical Research Unit (BRU), University of OxfordATDBio Ltd (now part of Biotage)Chemistry Research Laboratory, Department of Chemistry, University of OxfordBotnar Research Centre, Nuffield Department of Orthopaedics, Rheumatology and Musculoskeletal Sciences, National Institute of Health Research Oxford Biomedical Research Unit (BRU), University of OxfordBotnar Research Centre, Nuffield Department of Orthopaedics, Rheumatology and Musculoskeletal Sciences, National Institute of Health Research Oxford Biomedical Research Unit (BRU), University of OxfordAbstract Single-cell transcriptomics, which utilises barcodes and unique molecular identifiers (UMIs) for polyA+ mRNA capture, is compromised by oligonucleotide synthesis errors. To address this, we modified the oligonucleotide capture design and integrated an interposed anchor between the barcode and the UMI. This design significantly reduces the need to discard reads due to synthesis inaccuracies. Our results demonstrate that this anchor-enhanced design substantially improves gene expression profiles in droplet-based single-cell sequencing analyses.https://doi.org/10.1038/s42003-025-07474-5 |
| spellingShingle | Jianfeng Sun Martin Philpott Danson Loi Gabriela Hoffman Jonathan Robson Neelam Mehta Eleanor Calcutt Vicki Gamble Tom Brown Tom Brown Udo Oppermann Adam P. Cribbs Enhancing single-cell transcriptomics using interposed anchor oligonucleotide sequences Communications Biology |
| title | Enhancing single-cell transcriptomics using interposed anchor oligonucleotide sequences |
| title_full | Enhancing single-cell transcriptomics using interposed anchor oligonucleotide sequences |
| title_fullStr | Enhancing single-cell transcriptomics using interposed anchor oligonucleotide sequences |
| title_full_unstemmed | Enhancing single-cell transcriptomics using interposed anchor oligonucleotide sequences |
| title_short | Enhancing single-cell transcriptomics using interposed anchor oligonucleotide sequences |
| title_sort | enhancing single cell transcriptomics using interposed anchor oligonucleotide sequences |
| url | https://doi.org/10.1038/s42003-025-07474-5 |
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