@article{7feabbb1117d461f966286a67794956a,
title = "Highly parallel genome-wide expression profiling of individual cells using nanoliter droplets",
abstract = "Cells, the basic units of biological structure and function, vary broadly in type and state. Single-cell genomics can characterize cell identity and function, but limitations of ease and scale have prevented its broad application. Here we describe Drop-seq, a strategy for quickly profiling thousands of individual cells by separating them into nanoliter-sized aqueous droplets, associating a different barcode with each cell's RNAs, and sequencing them all together. Drop-seq analyzes mRNA transcripts from thousands of individual cells simultaneously while remembering transcripts' cell of origin. We analyzed transcriptomes from 44,808 mouse retinal cells and identified 39 transcriptionally distinct cell populations, creating a molecular atlas of gene expression for known retinal cell classes and novel candidate cell subtypes. Drop-seq will accelerate biological discovery by enabling routine transcriptional profiling at single-cell resolution. Video Abstract",
author = "Macosko, {Evan Z.} and Anindita Basu and Rahul Satija and James Nemesh and Karthik Shekhar and Melissa Goldman and Itay Tirosh and Bialas, {Allison R.} and Nolan Kamitaki and Martersteck, {Emily M.} and Trombetta, {John J.} and Weitz, {David A.} and Sanes, {Joshua R.} and Shalek, {Alex K.} and Aviv Regev and McCarroll, {Steven A.}",
note = "Funding Information: This work was supported by the Stanley Center for Psychiatric Research (to S.M.), the MGH Psychiatry Residency Research Program and Stanley-MGH Fellowship in Psychiatric Neuroscience (to E.Z.M.), a Stewart Trust Fellows Award (to S.M.), a grant from the Simons Foundation to the Simons Center for the Social Brain at MIT (to A.R., S.M., and D.W.), an NHGRI CEGS P50 HG006193 (to A.R.), the Klarman Cell Observatory (to A.R. and A.B.), NIMH grant U01MH105960 (to S.M., A.R. and J.R.S.), NIMH grant R25MH094612 (to E.M.), NIH F32 HD075541 (to R.S.). AR is an investigator of the Howard Hughes Medical Institute. Microfluidic device fabrication was performed at the Harvard Center for Nanoscale Systems (CNS), a member of the National Nanotechnology Infrastructure Network (National Science Foundation award no. ECS-0335765), with support from the National Science Foundation (DMR-1310266) and the Harvard Materials Research Science and Engineering Center (DMR-1420570). We thank Christina Usher and Leslie Gaffney for contributions to the manuscript figures and Chris Patil for helpful comments on the manuscript. We thank Connie Cepko for helpful conversations about the retina data, Beth Stevens for advice on retinal dissociations, and Assaf Rotem and Huidan Zhang for advice on microfluidics design and fabrication. A.R. is a member of the Scientific Advisory Board for Thermo Fisher Scientific and Syros Pharmaceuticals and a consultant for Driver Genomics. Publisher Copyright: {\textcopyright} 2015 Elsevier Inc. Copyright: Copyright 2021 Elsevier B.V., All rights reserved.",
year = "2015",
month = may,
day = "30",
doi = "10.1016/j.cell.2015.05.002",
language = "English (US)",
volume = "161",
pages = "1202--1214",
journal = "Cell",
issn = "0092-8674",
publisher = "Cell Press",
number = "5",
}