GSM9140388: P1_A; Ictidomys tridecemlineatus; ATAC-seq
The use of animals for these studies was conducted using protocols approved by the Johns Hopkins Animal Care and Use Committee, the UW Oshkosh Animal Care and Use Committee, and the Northwestern University Animal Care and Use Committee, in compliance with ARRIVE guidelines and the ARVO Statement for the Use of Animals in Ophthalmic and Vision Research, and were performed in accordance with relevant guidelines and regulations.Embryonic 13-lined ground squirrel (13LGS) retinal samples were collected from timed-pregnant captive dams and embryonic day was confirmed by comparison with mouse Theiler stages. Postnatal 13LGS retinal samples were collected from captive-bred litters with day of birth set as Postnatal Day 0. 13LGS were euthanized by decapitation. Retina and explants were dissociated, methanol-fixed cells rehydrated, and nuclei isolated from flash-frozen samples as previously described 71. GEM generation and library preparation for scRNA-Seq were completed according to the 10x 3' v3.1 user guide (Rev D) using the Chromium Next GEM Single Cell 3ʹ Kit v3.1 and Dual Index Kit TT Set A and for Cellplex samples according to the 10x Next GEM Single Cell 3' Reagent Kits v3.1 (Dual Index) with Feature Barcode technology for Cell Multiplexing (Rev A) using the 3ʹ CellPlex Kit Set A and Dual Index Kit NN Set A. Transposition, GEM generation, and library preparation for scATAC-Seq were completed according to the 10x ATAC v1.1 user guide (Rev D) using the Chromium Next GEM Single Cell ATAC Reagent Kits v1.1 and Single Index Kit N, Set A. Quality control and sequencing were performed by the Johns Hopkins Transcriptomics and Deep Sequencing Core.