PT  - JOURNAL ARTICLE
AU  - Adrian W. Briggs
AU  - Stephen J. Goldfless
AU  - Sonia Timberlake
AU  - Brian J. Belmont
AU  - Christopher R. Clouser
AU  - David Koppstein
AU  - Devin Sok
AU  - Jason Vander A. Heiden
AU  - Manu V. Tamminen
AU  - Steven H. Kleinstein
AU  - Dennis R. Burton
AU  - George M. Church
AU  - Francois Vigneault
TI  - Tumor-infiltrating immune repertoires captured by single-cell barcoding in emulsion
AID  - 10.1101/134841
DP  - 2017 Jan 01
TA  - bioRxiv
PG  - 134841
4099  - http://biorxiv.org/content/early/2017/05/05/134841.short
4100  - http://biorxiv.org/content/early/2017/05/05/134841.full
AB  - Tumor-infiltrating lymphocytes (TILs) are critical to anti-cancer immune responses, but their diverse phenotypes and functions remain poorly understood and challenging to study. We therefore developed a single-cell barcoding technology for deep characterization of TILs without the need for cell-sorting or culture. Our emulsion-based method captures full-length, natively paired B-cell and T-cell receptor (BCR and TCR) sequences from lymphocytes among millions of input cells. We validated the method with 3 million B-cells from healthy human blood and 350,000 B-cells from an HIV elite controller, before processing 400,000 cells from an unsorted dissociated ovarian adenocarcinoma and recovering paired BCRs and TCRs from over 11,000 TILs. We then extended the barcoding method to detect DNA-labeled antibodies, allowing ultra-high throughput, simultaneous protein detection and RNA sequencing from single cells.