G&T-seq: parallel sequencing of single-cell genomes and transcriptomes

Iain C Macaulay; Wilfried Haerty; Parveen Kumar; Yang I Li; Tim Xiaoming Hu; Mabel J Teng; Mubeen Goolam; Nathalie Saurat; Paul Coupland; Lesley M Shirley; Miriam Smith; Niels Van der Aa; Ruby Banerjee; Peter D Ellis; Michael A Quail; Harold P Swerdlow; Magdalena Zernicka-Goetz; Frederick J Livesey; Chris P Ponting; Thierry Voet

doi:10.1038/nmeth.3370

G&T-seq: parallel sequencing of single-cell genomes and transcriptomes

Nat Methods. 2015 Jun;12(6):519-22. doi: 10.1038/nmeth.3370. Epub 2015 Apr 27.

Authors

Iain C Macaulay¹, Wilfried Haerty², Parveen Kumar³, Yang I Li², Tim Xiaoming Hu², Mabel J Teng⁴, Mubeen Goolam⁵, Nathalie Saurat⁶, Paul Coupland⁷, Lesley M Shirley⁷, Miriam Smith⁷, Niels Van der Aa³, Ruby Banerjee⁸, Peter D Ellis⁷, Michael A Quail⁷, Harold P Swerdlow⁷, Magdalena Zernicka-Goetz⁵, Frederick J Livesey⁶, Chris P Ponting⁹, Thierry Voet¹⁰

Affiliations

¹ Sanger Institute-EBI Single-Cell Genomics Centre, Wellcome Trust Sanger Institute, Hinxton, UK.
² MRC Functional Genomics Unit, Department of Physiology, Anatomy and Genetics, University of Oxford, Oxford, UK.
³ Department of Human Genetics, University of Leuven, Leuven, Belgium.
⁴ Cancer Genome Project, Wellcome Trust Sanger Institute, Hinxton, Cambridge, UK.
⁵ Department of Physiology, Development and Neuroscience, Downing Site, University of Cambridge, Cambridge, UK.
⁶ Wellcome Trust/Cancer Research UK Gurdon Institute, University of Cambridge, Cambridge, UK.
⁷ Sequencing R&D, Wellcome Trust Sanger Institute, Hinxton, Cambridge, UK.
⁸ Cytogenetics Core Facility, Wellcome Trust Sanger Institute, Hinxton, Cambridge, UK.
⁹ 1] Sanger Institute-EBI Single-Cell Genomics Centre, Wellcome Trust Sanger Institute, Hinxton, UK. [2] MRC Functional Genomics Unit, Department of Physiology, Anatomy and Genetics, University of Oxford, Oxford, UK.
¹⁰ 1] Sanger Institute-EBI Single-Cell Genomics Centre, Wellcome Trust Sanger Institute, Hinxton, UK. [2] Department of Human Genetics, University of Leuven, Leuven, Belgium.

PMID: 25915121
DOI: 10.1038/nmeth.3370

Abstract

The simultaneous sequencing of a single cell's genome and transcriptome offers a powerful means to dissect genetic variation and its effect on gene expression. Here we describe G&T-seq, a method for separating and sequencing genomic DNA and full-length mRNA from single cells. By applying G&T-seq to over 220 single cells from mice and humans, we discovered cellular properties that could not be inferred from DNA or RNA sequencing alone.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Animals
Cell Line, Tumor
DNA / genetics*
Genomics / methods*
Humans
Mice
Nucleic Acid Amplification Techniques / methods*
RNA, Messenger / genetics*

Substances

RNA, Messenger
DNA

Abstract

Publication types

MeSH terms

Substances

Grants and funding