title: GSM8761255: Female E13.5, GEX, replicate 2; Mus musculus; RNA-Seq
library_construction_protocol: Whole ovaries and testes were collected at E11.5, E11.5, and E12.5. The sexes of the embryos were determined using amnion staining, as previously published20, to identify the presence (XX) or absence (XY) of the Barr body and confirmed with PCR using primers that recognize the Y chromosome. Tomato fluorescence was used to facilitate the dissection of the gonad away from the mesonephros, which was done using needles. Isolated fetal mouse gonads were isolated in PBS, and pairs of gonads or groups pooled between fetuses of the same sex and age were immediately frozen in liquid nitrogen for storage. Nuclei isolation was performed using the 10X Genomics Chromium Nuclei Isolation Kit (catalog #1000494) following the manufacturer's protocol. The 10X Genomics Chromium Next GEM Single Cell Multiome ATAC + Gene Expression Library Preparation Kit (catalog #1000284) was used to generate a 10X barcoded library of mRNA and transposed DNA from individual nuclei. The 10X barcoded single-nuclei RNA and ATAC-seq libraries were obtained from 8,687 average (1,555-20,000) nuclei per sample and sequenced with Illumina NOVAseq to a minimum sequencing depth of 129,120,442 raw reads and 22,406 read pairs/nucleus