• Optimizing sparse sequencing of single cells for highly multiplex copy number profiling.

Optimizing sparse sequencing of single cells for highly multiplex copy number profiling.

Genome research (2015-04-11)
Timour Baslan, Jude Kendall, Brian Ward, Hilary Cox, Anthony Leotta, Linda Rodgers, Michael Riggs, Sean D'Italia, Guoli Sun, Mao Yong, Kristy Miskimen, Hannah Gilmore, Michael Saborowski, Nevenka Dimitrova, Alexander Krasnitz, Lyndsay Harris, Michael Wigler, James Hicks

Genome-wide analysis at the level of single cells has recently emerged as a powerful tool to dissect genome heterogeneity in cancer, neurobiology, and development. To be truly transformative, single-cell approaches must affordably accommodate large numbers of single cells. This is feasible in the case of copy number variation (CNV), because CNV determination requires only sparse sequence coverage. We have used a combination of bioinformatic and molecular approaches to optimize single-cell DNA amplification and library preparation for highly multiplexed sequencing, yielding a method that can produce genome-wide CNV profiles of up to a hundred individual cells on a single lane of an Illumina HiSeq instrument. We apply the method to human cancer cell lines and biopsied cancer tissue, thereby illustrating its efficiency, reproducibility, and power to reveal underlying genetic heterogeneity and clonal phylogeny. The capacity of the method to facilitate the rapid profiling of hundreds to thousands of single-cell genomes represents a key step in making single-cell profiling an easily accessible tool for studying cell lineage.

Product Number
Product Description

SeqPlex DNA Amplification Kit, For use with high throughput sequencing technologies, Whole Genome Amplification kit designed to facilitate Next Gen Sequencing.
GenomePlex® Single Cell Whole Genome Amplification Kit, Amplify genome of a single cell