Additional file 13: of Global analysis of primary mesenchyme cell cis-regulatory modules by chromatin accessibility profiling

Table S8. Peaks cloned into EpGFPII and injected into S. purpuratus eggs. Column 1: ATAC Peak Name: Peak number obtained from ATAC-seq RPS peak names. These are the peaks cloned into the EpGFPII plasmid. Column 2: Scaffold: S. purpuratus genome version 3.1 scaffold containing the peak. Column 3: Start: Start coordinate of the peak. Column 4: End: End coordinate of the peak. Column 5: Name of closest gene. Column 6: PMC DE gene?: "Yes" if the closest gene is a PMC DE gene. Column 7: DNase-seq Diff Peak?: "Yes" if this peak is also differential in the DNase-seq dataset. Column 8: GFP Expression?: "Yes, PMC-specific" if the construct drives PMC-specific GFP expression in 48-hour embryos. Column 9: Region Cloned: The coordinates of the region (containing the peak plus flanking regions) cloned into the EpGFPII plasmid. Column 10: Orientation wrt Closest Gene: "Normal" orientation indicates that the peak was cloned in its normal orientation relative to the coding strand of the closest gene. "Reversed" means that the orientation was reversed relative to the coding strand of the closest gene. Column 11: Notes: Additional information, if applicable, regarding additional peaks cloned into the same construct. (XLSX 52 kb)

表S8：克隆至EpGFPII质粒并注射至紫海胆（S. purpuratus）卵的染色质开放峰。列1：ATAC峰名称（ATAC Peak Name）：取自转座酶可及性测序（ATAC-seq）RPS峰命名体系的峰编号，对应克隆至EpGFPII质粒的染色质开放峰。列2：基因组支架（Scaffold）：承载该峰的紫海胆基因组版本3.1的支架序列。列3：起始坐标（Start）：该染色质开放峰的起始位点坐标。列4：终止坐标（End）：该染色质开放峰的终止位点坐标。列5：邻近基因名称。列6：是否为PMC差异表达基因？（PMC DE gene?）：若该邻近基因为原肠间质细胞（primary mesenchyme cell, PMC）差异表达基因，则标注为“Yes”。列7：是否为DNase-seq差异峰？（DNase-seq Diff Peak?）：若该峰在脱氧核糖核酸酶I敏感位点测序（DNase-seq）数据集内同时为差异峰，则标注为“Yes”。列8：GFP表达情况（GFP Expression?）：若该重组构建体可在48小时胚胎中驱动PMC特异性绿色荧光蛋白（GFP）表达，则标注为“Yes, PMC-specific”。列9：克隆区域（Region Cloned）：克隆至EpGFPII质粒的区域坐标，包含该染色质开放峰及其侧翼序列。列10：相对于邻近基因的方向（Orientation wrt Closest Gene）：“Normal”（正向）表示该峰以与邻近基因编码链一致的原始方向被克隆；“Reversed”（反向）表示该峰相对于邻近基因编码链的方向被反转。列11：备注（Notes）：若有相关附加信息，例如同一重组构建体中克隆的其他染色质开放峰相关说明。（附件格式：XLSX，大小：52 KB）