Mouse hearts after myocardial infarct

Data set contains samples from isolated cells of murine hearts after myocardial infarction (LAD surgery). We used an endothelial tracing system to mark endothelial cells with EGFP prior to infarct. In brief, Cdh5-ERT2+/-;mT/mG mice, which were used at an age of 10-12 weeks. Cre expression was induced by daily intraperitoneal injections of 2 mg tamoxifen for 1 week in all mice. One week after tamoxifen injection, left anterior descending coronary artery ligation surgery was performed, inducing myocardial infarction. We collected samples at homeostasis, days(d) 1, 3, 7, 14 and 28 after infarction and isolated the non-cardiomyocyte fraction for single cell sequencing. Murine scRNA-seq libraries were prepared using Chromium Single Cell 3′ v3 Reagent Kit (10X Genomics), according to manufacturer’s protocols. Raw reads were mapped against a customized version of mm10 (GRCm38.p4) containing sequences of EGFP and tdTomato.

本数据集包含心肌梗死造模（左前降支结扎手术，left anterior descending coronary artery ligation, LAD surgery）后小鼠心脏的分离细胞样本。我们于梗死造模前，采用内皮细胞示踪系统以增强型绿色荧光蛋白（enhanced green fluorescent protein, EGFP）标记内皮细胞。简言之，本实验使用周龄为10~12周的Cdh5-ERT2+/-;mT/mG基因工程小鼠。对所有小鼠每日腹腔注射2mg他莫昔芬（tamoxifen），连续给药1周以诱导Cre重组酶表达。他莫昔芬给药结束1周后，实施左前降支冠状动脉结扎手术以构建心肌梗死模型。我们分别在稳态条件下，以及梗死后第1、3、7、14、28天采集样本，分离非心肌细胞组分用于单细胞测序。小鼠单细胞RNA测序（single cell RNA-sequencing, scRNA-seq）文库构建采用10X Genomics公司的Chromium Single Cell 3′ v3 Reagent Kit，严格遵循厂商提供的实验规程。原始测序reads比对至定制化的mm10（GRCm38.p4）参考基因组，该基因组包含EGFP与tdTomato的序列。