TY  - JOUR
A1  - Li, Siran
A1  - Kendall, Jude
A1  - Park, Sarah
A1  - Wang, Zihua
A1  - Alexander, Joan
A1  - Moffitt, Andrea
A1  - Ranade, Nissim
A1  - Danyko, Cassidy
A1  - Gegenhuber, Bruno
A1  - Fischer, Stephan
A1  - Robinson, Brian D.
A1  - Lepor, Herbert
A1  - Tollkuhn, Jessica
A1  - Gillis, Jesse
A1  - Brouzes, Eric
A1  - Krasnitz, Alex
A1  - Levy, Dan
A1  - Wigler, Michael
T1  - Copolymerization of single-cell nucleic acids into balls of acrylamide gel
Y1  - 2020/01/01 
JF  - Genome Research 
JO  - Genome Research 
SP  - 49 
EP  - 61 
DO  - 10.1101/gr.253047.119 
VL  - 30 
IS  - 1 
UR  - http://genome.cshlp.org/content/30/1/49.abstract 
N2  - 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. 
ER  -