The yeastDrop-Seq solution containing chemicals for cell-wall digestion and cell lysis is mixed with barcoded microbeads, and the mixture is flown through one inlet of a microfluidic device. Yeast cells with intact cell walls and oil are flown through the second and third inlet of the microfluidic device, respectively. Encapsulated cells are then incubated to allow for cell-wall breakage and lysis. mRNA molecules hybridize to the barcoded microbeads via their polyA tails, droplets are broken, and reverse transcription occurs. cDNA is PCR-amplified and the cDNA libraries are prepared and submitted for sequencing.