Droplet-based single-cell transcriptomic profiling of Caenorhabditis elegans neurons

Methods

Caenorhabditis elegans were maintained on NGM plates seeded with E. coli OP50 at 20 C. Neuronal
nuclei were isolated from synchronized populations and subjected to droplet-based single-cell
RNA-seq using a commercial microfluidic platform following the manufacturer's recommended protocol.

Barcoded cDNA was amplified and libraries were sequenced to a depth of approximately 40,000 read
pairs per cell. Sequencing was performed on an Illumina platform in paired-end mode.

Count matrices were generated with a standard barcode-aware alignment pipeline and downstream
analysis was performed in R.
