PLX076163

GSE109535: scFTD-seq: freeze-thaw lysis based, portable approach toward highly distributed single-cell 3 mRNA profiling

• Organsim human
• Type RNASEQ
• Target gene
• Project ARCHS4

We present sc-FTDseq, a microchip platform for single-cell freeze-thaw lysis directly toward 3 mRNA sequencing. It offers format flexibility with a much simplified, widely adoptable workflow that reduces the number of preparation steps and hands-on time, with the quality of data and the cost per sample matching that of the state-of-the-art scRNA-seq platforms. Freeze-thaw, known as an unfavorable lysis method resulting in RNA fragmentation, turns out to be fully compatible with single-cell 3 mRNA sequencing, which detects only ~50 bases at the 3 end. We applied it to the profiling of mixed populations including whole tumors for distinguishing all major cell types and to the profiling of circulating follicular helper T cells implicated in systemic lupus erythematosus pathogenesis. Our results delineate the heterogeneity in the transcriptional programs and effector functions of these rare pathogenic T cells. SOURCE: Burak Dura (burak.dura@yale.edu) - Rong Fan Lab Yale University