|Number of samples:||643|
|Release date:||May 21 2015|
|Last update date:||Oct 26 2018|
|Computational protocol:||CEL-Seq, STAR, HTSeq, Cufflinks, t-SNE, iGenomes, GEO|
|Dataset link||Scalable Microfluidics for Single Cell RNA Printing and Sequencing|
A microfluidic device that pairs sequence-barcoded mRNA capture beads with individual cells was used to barcode cDNA from individual cells which was then pre-amplified by in vitro transcription in a pool and converted into an Illumina RNA-Seq library. Libraries were generated from ~600 individual cells in parallel and extensive analysis was done on 396 cells from the U87 and MCF10a cell lines and from ~500 individual cells with extensive analysis on 247 cells from the U87 and WI-38 cell lines. Sequencing was done on the 3'-end of the transcript molecules. The first read contains cell-identifying barcodes that were present on the capture bead and the second read contains a unique molecular identifier (UMI) barcode, a lane-identifying barcode, and then the sequence of the transcript.
Peter A Sims
DOI: 10.1186/s13059-015-0684-3call_split See protocol