Epigenome-wide association study of pregnancy exposure to green space and placental DNA methylation
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############################################################################################################### # Epigenome-wide association study of pregnancy exposure to green space and placental DNA methylation ############################################################################################################### #NOTE: In this study the regression coefficients are reported as the difference in DNA methylation by IQR of continuous green space exposures to green space (NDVI 100m, NDVI 300m, NDVI 500, Distance GS and Use GS) or by exposure group of the categorical variables (Visual GS) (ie. visual access to greenery equal to or more than half of the living room window vs. less than half). EWASpla_NDVI100m_main.txt: NDVI 100 m during pregnancy genome-wide DNA methylation summarized results (Main) EWASpla_NDVI300m_main.txt: NDVI 300 m during pregnancy genome-wide DNA methylation summarized results (Main) EWASpla_NDVI500m_main.txt: NDVI 00 m during pregnancy genome-wide DNA methylation summarized results (Main) EWASpla_UseGS_main.txt: Use of green space during pregnancy genome-wide DNA methylation summarized results (Main) EWASpla_VisualGS_12w_main.txt: Visual access to green space during pregnancy (12w) genome-wide DNA methylation summarized results (Main) EWASpla_VisualGS_32w_main.txt: Visual access to green space during pregnancy (32w) genome-wide DNA methylation summarized results (Main) #------- #Headers #------- -probeID: CpG name-BETA: Coefficient of the association-SE: Standard error of the association-P_VAL: P-value of the association-padj.bonf: Significant (yes/no) after Bonferroni (BN) correction (P-value < 7.2 x 10-8) -chr: Chromosome -pos: Position refers to Genome Research Consortium human genome build 37 (GRCh37)/UCSC human genome 19 (hg19) -Relation_to_Island: Island: located in a CpG island; S_Shore: 0-2 kb downstream (3') from a CpG island; N_Shore: 0-2 kb upstream (5')from a CpG island; OpenSea: the rest of the genome; N_Shelf: 2-4 kb upstream (5') from the CpG island; S_Shelf: 2-4 kb downstream (3') from the CpG island.-UCSC_RefGene_Group: Gene location -UCSC_RefGene_Name: Annotated gene using the Illumina database
# 妊娠期间绿地暴露与胎盘DNA甲基化的表观全基因组关联研究（Epigenome-wide Association Study, EWAS） # 注：本研究中，回归系数以连续型绿地暴露指标（100米归一化差异植被指数（Normalized Difference Vegetation Index, NDVI）、300米NDVI、500米NDVI、绿地距离、绿地使用情况）的四分位距（Interquartile Range, IQR）对应的DNA甲基化差异，或分类变量（视觉绿地暴露）的暴露组间差异进行报告（即客厅窗户视野内绿地占比不低于一半 vs 低于一半）。 EWASpla_NDVI100m_main.txt：妊娠期间100米尺度NDVI的胎盘全基因组DNA甲基化汇总结果（主分析） EWASpla_NDVI300m_main.txt：妊娠期间300米尺度NDVI的胎盘全基因组DNA甲基化汇总结果（主分析） EWASpla_NDVI500m_main.txt：妊娠期间500米尺度NDVI的胎盘全基因组DNA甲基化汇总结果（主分析） EWASpla_UseGS_main.txt：妊娠期间绿地使用情况的胎盘全基因组DNA甲基化汇总结果（主分析） EWASpla_VisualGS_12w_main.txt：妊娠12周时视觉绿地暴露的胎盘全基因组DNA甲基化汇总结果（主分析） EWASpla_VisualGS_32w_main.txt：妊娠32周时视觉绿地暴露的胎盘全基因组DNA甲基化汇总结果（主分析） #------- # 表头说明 #------- -probeID：CpG位点名称 -BETA：关联分析的回归系数 -SE：关联分析的标准误 -P_VAL：关联分析的P值 -padj.bonf：经邦弗朗尼（Bonferroni, BN）校正后是否具有统计学显著性（P值<7.2×10⁻⁸，是/否） -chr：染色体编号 -pos：基因组位置，对应人类基因组参考序列GRCh37（Genome Research Consortium human genome build 37）/UCSC人类基因组19版本（hg19） -Relation_to_Island：CpG位点与CpG岛的位置关系： - Island：位于CpG岛内； - S_Shore：CpG岛下游（3'端）0-2kb区域； - N_Shore：CpG岛上游（5'端）0-2kb区域； - OpenSea：基因组其余区域； - N_Shelf：CpG岛上游（5'端）2-4kb区域； - S_Shelf：CpG岛下游（3'端）2-4kb区域。 -UCSC_RefGene_Group：基因所在区域注释 -UCSC_RefGene_Name：基于Illumina数据库注释的关联基因
