SCOPE-Seq: a scalable technology for linking live cell imaging and single-cell RNA sequencing
Abstract Optically decodable beads link the identity of a sample to a measurement through an optical barcode, enabling libraries of biomolecules to be captured on beads in solution and decoded by fluorescence. This approach has been foundational to microarray, sequencing, and flow-based expression p...
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doaj-238517540d0e4e14966c2c7e5108dd3d2020-11-25T01:08:22ZengBMCGenome Biology1474-760X2018-12-011911510.1186/s13059-018-1607-xSCOPE-Seq: a scalable technology for linking live cell imaging and single-cell RNA sequencingJinzhou Yuan0Jenny Sheng1Peter A. Sims2Department of Systems Biology, Columbia University Irving Medical CenterIntegrated Program in Cellular, Molecular, and Biomedical Studies, Columbia University Irving Medical CenterDepartment of Systems Biology, Columbia University Irving Medical CenterAbstract Optically decodable beads link the identity of a sample to a measurement through an optical barcode, enabling libraries of biomolecules to be captured on beads in solution and decoded by fluorescence. This approach has been foundational to microarray, sequencing, and flow-based expression profiling technologies. We combine microfluidics with optically decodable beads and show that phenotypic analysis of living cells can be linked to single-cell sequencing. As a proof-of-concept, we demonstrate the accuracy and scalability of our tool called Single Cell Optical Phenotyping and Expression sequencing (SCOPE-Seq) to combine live cell imaging with single-cell RNA sequencing.http://link.springer.com/article/10.1186/s13059-018-1607-xSingle-cell RNA-SeqLive cell imagingMicrofluidics |
collection |
DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
Jinzhou Yuan Jenny Sheng Peter A. Sims |
spellingShingle |
Jinzhou Yuan Jenny Sheng Peter A. Sims SCOPE-Seq: a scalable technology for linking live cell imaging and single-cell RNA sequencing Genome Biology Single-cell RNA-Seq Live cell imaging Microfluidics |
author_facet |
Jinzhou Yuan Jenny Sheng Peter A. Sims |
author_sort |
Jinzhou Yuan |
title |
SCOPE-Seq: a scalable technology for linking live cell imaging and single-cell RNA sequencing |
title_short |
SCOPE-Seq: a scalable technology for linking live cell imaging and single-cell RNA sequencing |
title_full |
SCOPE-Seq: a scalable technology for linking live cell imaging and single-cell RNA sequencing |
title_fullStr |
SCOPE-Seq: a scalable technology for linking live cell imaging and single-cell RNA sequencing |
title_full_unstemmed |
SCOPE-Seq: a scalable technology for linking live cell imaging and single-cell RNA sequencing |
title_sort |
scope-seq: a scalable technology for linking live cell imaging and single-cell rna sequencing |
publisher |
BMC |
series |
Genome Biology |
issn |
1474-760X |
publishDate |
2018-12-01 |
description |
Abstract Optically decodable beads link the identity of a sample to a measurement through an optical barcode, enabling libraries of biomolecules to be captured on beads in solution and decoded by fluorescence. This approach has been foundational to microarray, sequencing, and flow-based expression profiling technologies. We combine microfluidics with optically decodable beads and show that phenotypic analysis of living cells can be linked to single-cell sequencing. As a proof-of-concept, we demonstrate the accuracy and scalability of our tool called Single Cell Optical Phenotyping and Expression sequencing (SCOPE-Seq) to combine live cell imaging with single-cell RNA sequencing. |
topic |
Single-cell RNA-Seq Live cell imaging Microfluidics |
url |
http://link.springer.com/article/10.1186/s13059-018-1607-x |
work_keys_str_mv |
AT jinzhouyuan scopeseqascalabletechnologyforlinkinglivecellimagingandsinglecellrnasequencing AT jennysheng scopeseqascalabletechnologyforlinkinglivecellimagingandsinglecellrnasequencing AT peterasims scopeseqascalabletechnologyforlinkinglivecellimagingandsinglecellrnasequencing |
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1725182927196651520 |