Comparative performance of the BGI and Illumina sequencing technology for single-cell RNA-sequencing

A Senabouth; S Andersen; Q Shi; L Shi; F Jiang; W Zhang; K Wing; M Daniszewski; SW Lukowski; SSC Hung; Q Nguyen; L Fink; A Beckhouse; A Pébay; AW Hewitt; JE Powell

Journal article

Comparative performance of the BGI and Illumina sequencing technology for single-cell RNA-sequencing

A Senabouth, S Andersen, Q Shi, L Shi, F Jiang, W Zhang, K Wing, M Daniszewski, SW Lukowski, SSC Hung, Q Nguyen, L Fink, A Beckhouse, A Pébay, AW Hewitt, JE Powell

Nar Genomics and Bioinformatics | OXFORD UNIV PRESS | Published : 2020

DOI: 10.1093/nargab/lqaa034

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Abstract

The libraries generated by high-throughput single cell RNA-sequencing (scRNA-seq) platforms such as the Chromium from 10× Genomics require considerable amounts of sequencing, typically due to the large number of cells. The ability to use these data to address biological questions is directly impacted by the quality of the sequence data. Here we have compared the performance of the Illumina NextSeq 500 and NovaSeq 6000 against the BGI MGISEQ-2000 platform using identical Single Cell 3 libraries consisting of over 70 000 cells generated on the 10× Genomics Chromium platform. Our results demonstrate a highly comparable performance between the NovaSeq 6000 and MGISEQ-2000 in sequencing quality, ..

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University of Melbourne Researchers

Maciej Daniszewski Author

Sandy Hung Author

Alice Pebay Author

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Grants

Awarded by Australian Research Council

Funding Acknowledgements

National Health and Medical Research Council (NHMRC)[APP1132719, APP1083405, APP1107599]; Stem Cells Australia--the Australian Research Council Special Research Initiative in Stem Cell Science (to J.E.P., A.W.H.,A.P.); Macular Disease Foundation of Australia (to A.P., A.W.H., J.E.P.); Yulgilbar Foundation (to J.E.P., A.P.); NHMRC Practitioner Fellowship [1103329 to A.W.H.]; NHMRC Senior Research Fellowship [1154389 to A.P.]; Australian Research Council Future Fellowship [FT140100047 to A.P.]