Instrument: Illumina NovaSeq 6000
Strategy: RNA-Seq
Source: TRANSCRIPTOMIC
Selection: cDNA
Layout: PAIRED
Construction protocol: Cell lysis and amplification. In-situ reverse transcription on spatially barcoded microwell array. Pooling cells off array and FACS sorting for secondary indexing. Cell lysis, reverse transcription template switching and barcoded cDNA amplification. cDNA tagmentation amplification with primers containing short-read sequencing adapters (Illumina). Combinatorial indexing for single cell barcoding. Initial barcoding step provides 2-dimensional spatial index.