@article{Li01012020,
author = {Li, Siran and Kendall, Jude and Park, Sarah and Wang, Zihua and Alexander, Joan and Moffitt, Andrea and Ranade, Nissim and Danyko, Cassidy and Gegenhuber, Bruno and Fischer, Stephan and Robinson, Brian D. and Lepor, Herbert and Tollkuhn, Jessica and Gillis, Jesse and Brouzes, Eric and Krasnitz, Alex and Levy, Dan and Wigler, Michael}, 
title = {Copolymerization of single-cell nucleic acids into balls of acrylamide gel},
volume = {30}, 
number = {1}, 
pages = {49-61}, 
year = {2020}, 
doi = {10.1101/gr.253047.119}, 
abstract ={We show the use of 5′-Acrydite oligonucleotides to copolymerize single-cell DNA or RNA into balls of acrylamide gel (BAGs). Combining this step with split-and-pool techniques for creating barcodes yields a method with advantages in cost and scalability, depth of coverage, ease of operation, minimal cross-contamination, and efficient use of samples. We perform DNA copy number profiling on mixtures of cell lines, nuclei from frozen prostate tumors, and biopsy washes. As applied to RNA, the method has high capture efficiency of transcripts and sufficient consistency to clearly distinguish the expression patterns of cell lines and individual nuclei from neurons dissected from the mouse brain. By using varietal tags (UMIs) to achieve sequence error correction, we show extremely low levels of cross-contamination by tracking source-specific SNVs. The method is readily modifiable, and we will discuss its adaptability and diverse applications.}, 
URL = {http://genome.cshlp.org/content/30/1/49.abstract}, 
eprint = {http://genome.cshlp.org/content/30/1/49.full.pdf+html}, 
journal = {Genome Research} 
}