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Series GSE116011 Query DataSets for GSE116011
Status Public on Nov 22, 2018
Title An Optically Decodable Bead Array for Linking Imaging and Sequencing with Single-Cell Resolution
Organisms Homo sapiens; Mus musculus; synthetic construct
Experiment type Expression profiling by high throughput sequencing
Summary Optically decodable beads link the identity of an analyte or 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 have combined microfluidics with optically decodable beads to link phenotypic analysis of living cells to sequencing. As a proof-of-concept, we applied this to demonstrate an accurate and scalable tool for connecting live cell imaging to single-cell RNA-Seq called Single Cell Optical Phenotyping and Expression (SCOPE-Seq).
Overall design Performed SCOPE-Seq on thousands of cells from two cell lines.
Contributor(s) Yuan J, Sims PA
Citation(s) 30583733
Submission date Jun 19, 2018
Last update date Feb 27, 2019
Contact name Peter Sims
Organization name Columbia University
Street address 3960 Broadway, 2nd Floor, Room 203AC
City New York
State/province NY
ZIP/Postal code 10032
Country USA
Platforms (2)
GPL19415 Illumina NextSeq 500 (Homo sapiens; Mus musculus)
GPL19424 Illumina NextSeq 500 (synthetic construct)
Samples (11)
GSM3207041 U87_3T3_scRNAseq [PJ061-701]
GSM3207042 U87_3T3_scRNAseq [PJ061-702]
GSM3207043 U87_3T3_scRNAseq [PJ061-703]
BioProject PRJNA476792
SRA SRP150876

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE116011_RAW.tar 22.9 Mb (http)(custom) TAR (of TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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