title: Seq-Well: portable, low-cost RNA sequencing of single cells at high throughput.
abstract: Single-cell RNA-seq can precisely resolve cellular states, but applying this method to low-input samples is challenging. Here, we present Seq-Well, a portable, low-cost platform for massively parallel single-cell RNA-seq. Barcoded mRNA capture beads and single cells are sealed in an array of subnanoliter wells using a semipermeable membrane, enabling efficient cell lysis and transcript capture. We use Seq-Well to profile thousands of primary human macrophages exposed to Mycobacterium tuberculosis.
authors.affiliation: Koch Institute for Integrative Cancer Research, MIT, Cambridge, Massachusetts, USA.
authors.forename: Todd M
authors.initials: TM
authors.lastname: Gierahn
authors.affiliation: Institute for Medical Engineering &Science (IMES) and Department of Chemistry, MIT, Cambridge, Massachusetts, USA.|Broad Institute of MIT and Harvard, Cambridge, Massachusetts, USA.|Ragon Institute of MGH, MIT and Harvard, Cambridge, Massachusetts, USA.
authors.forename: Marc H
authors.initials: MH
authors.lastname: Wadsworth
authors.affiliation: Institute for Medical Engineering &Science (IMES) and Department of Chemistry, MIT, Cambridge, Massachusetts, USA.|Broad Institute of MIT and Harvard, Cambridge, Massachusetts, USA.|Ragon Institute of MGH, MIT and Harvard, Cambridge, Massachusetts, USA.
authors.forename: Travis K
authors.initials: TK
authors.lastname: Hughes
authors.affiliation: Ragon Institute of MGH, MIT and Harvard, Cambridge, Massachusetts, USA.|Department of Immunology and Infectious Diseases, Harvard School of Public Health, Boston, Massachusetts, USA.
authors.forename: Bryan D
authors.initials: BD
authors.lastname: Bryson
authors.affiliation: Center for Genomics and Systems Biology, Department of Biology, New York University, New York, New York, USA.|New York Genome Center, New York, New York, USA.
authors.forename: Andrew
authors.initials: A
authors.lastname: Butler
authors.affiliation: Center for Genomics and Systems Biology, Department of Biology, New York University, New York, New York, USA.|New York Genome Center, New York, New York, USA.
authors.forename: Rahul
authors.initials: R
authors.lastname: Satija
authors.affiliation: Ragon Institute of MGH, MIT and Harvard, Cambridge, Massachusetts, USA.|Department of Immunology and Infectious Diseases, Harvard School of Public Health, Boston, Massachusetts, USA.
authors.forename: Sarah
authors.initials: S
authors.lastname: Fortune
authors.affiliation: Koch Institute for Integrative Cancer Research, MIT, Cambridge, Massachusetts, USA.|Broad Institute of MIT and Harvard, Cambridge, Massachusetts, USA.|Ragon Institute of MGH, MIT and Harvard, Cambridge, Massachusetts, USA.
authors.forename: J Christopher
authors.initials: JC
authors.lastname: Love
authors.affiliation: Institute for Medical Engineering &Science (IMES) and Department of Chemistry, MIT, Cambridge, Massachusetts, USA.|Broad Institute of MIT and Harvard, Cambridge, Massachusetts, USA.|Ragon Institute of MGH, MIT and Harvard, Cambridge, Massachusetts, USA.
authors.forename: Alex K
authors.initials: AK
authors.lastname: Shalek
mesh_terms: D016475:3T3 Cells; D000818:Animals; D057809:HEK293 Cells; D059014:High-Throughput Nucleotide Sequencing / Q000191:economics / Q000295:instrumentation / Q000379:methods*; D006801:Humans; D007963:Leukocytes, Mononuclear / Q000502:physiology; D008264:Macrophages / Q000382:microbiology / Q000502:physiology; D051379:Mice; D009169:Mycobacterium tuberculosis / Q000472:pathogenicity; D012333:RNA, Messenger / Q000235:genetics; D017423:Sequence Analysis, RNA / Q000191:economics / Q000295:instrumentation / Q000379:methods*; D059010:Single-Cell Analysis / Q000191:economics / Q000295:instrumentation / Q000379:methods*
chemical_list: D012333:RNA, Messenger