The first automated solution for single-cell genomics research, the C1 Single-Cell Auto Prep system employs innovative microfluidic technology to rapidly and reliably isolate, process and prepare individual cells for genome and transcriptome analysis. The C1 system isolates single cells into individual reaction chambers in Fludigm’s integrated fluidic circuit (IFC). The optically clear IFC allows for automated staining of captured cells and examination by microscopy for viability, surface markers or reporter genes. After staining, cells are automatically lysed and template is quickly prepared for qPCR or sequencing analysis. The applications for this system include, gene expression and single-cell genomics.