Enhancing single-cell transcriptomics using interposed anchor oligonucleotide sequences
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.
Authors
- Vicki Gamble
- Gary Hoffmann (ORCID: https://orcid.org/0000-0002-0986-4310)
- Udo Oppermann (ORCID: https://orcid.org/0000-0001-9984-5342)
- Danson Loi (ORCID: https://orcid.org/0000-0003-0137-9094)
- Adam P. Cribbs (ORCID: https://orcid.org/0000-0001-5288-3077)
- Neelam Mehta
- Jonathan A. Robson (ORCID: https://orcid.org/0000-0002-0670-5875)
- Martin Philpott (ORCID: https://orcid.org/0000-0003-3632-0084)
- Tom Brown (ORCID: https://orcid.org/0000-0002-6538-3036)
- Jianfeng Sun (ORCID: https://orcid.org/0000-0002-1274-5080)
- Eleanor Calcutt
Institutions
- Nuffield Orthopaedic Centre (GB)
- University of Oxford (GB)
- ATDBio (United Kingdom) (GB)
- Oxford Centre for Mission Studies (GB)
Publication Details
- Journal
- Communications Biology
- Published
- 2025-01-16
- DOI
- https://doi.org/10.1038/s42003-025-07474-5
- Citations
- 4
- Primary Topic
- Single-cell and spatial transcriptomics
- Type
- article
- Field-Weighted Citation Impact
- 3.22
Funders
- Cancer Research UK
- National Institute for Health and Care Research
- Fondation Leducq
- Medical Research Council
- Engineering and Physical Sciences Research Council