GSM5504589: ORmusRNAseqHET4; Mus musculus; RNA-Seq
For the Bulk MARS-Seq and total RNAseq experiments E13 embryos were removed and their cortices dissected in cold PBS and immediately flash frozen in liquid nitrogen and kept in -80C until RNA extraction. RNA was harvested using RNeasy Mini kit, Quiagen The 10x Genomics© Chromium system was used to capture 5000 single cells. The sequencing library was generated using the 10x Genomics© Single Cell 3′ Solution kit and subjected to Illumina NextSeq 500. Bulk MARS-Seq library preparation was done according to MARS-seq protocol (Jaitin et al. 2014 Science.343:776-9, Keren-Shaul et al. 2019 Nature Protocols) and sequenced using NextSeq 500 High Output Kit v2.0  75 Cycles (Illumina). For the Bulk RNA-Seq libraries we applied ribosomal RNA-depletion using Illumina's RiboZero, followed by library preparation with Illumina's TruSeq Stranded Total RNA library preparation kit. libraries were sequenced using NextSeq 500/550 High Output Kit v2.0  75 Cycles (Illumina)