Additional file 1 of Genome-wide analyses reveal intricate genetic mechanisms underlying egg production efficiency in chickens

Additional file 1: Supplementary Table S1 Definition and descriptive statistics of derived traits. Supplementary Table S2 Haplotype-based GWAS summary statistics for up-ECI. Supplementary Table S3 Haplotype-based GWAS summary statistics for all-TILI. Supplementary Table S4 Haplotype-based GWAS summary statistics for all-WEV. Supplementary Table S5 Haplotype-based GWAS summary statistics for up-MILI. Supplementary Table S6 Distribution of BHA and UHA within significant blocks of haplotype-based GWAS. Supplementary Table S7 Information of 39 Chinese local chicken populations. Supplementary Table S8 Correlation between the rank of P-value from SNP-based GWAS and tSDS values. Supplementary Table S9 CCA-based multi-trait GWAS summary statistics for up-stage. Supplementary Table S10 CCA-based multi-trait GWAS summary statistics for sustained-stage. Supplementary Table S11 Candidate genes using significance thresholdin our previous study. Supplementary Table S12 Gene prioritization of candidate genes reported in SNP-based GWAS and haplotype-based GWAS

附加文件1：补充表S1 衍生性状的定义与描述性统计量。补充表S2 针对up-ECI的基于单倍型的全基因组关联分析（haplotype-based GWAS）汇总统计量。补充表S3 针对all-TILI的基于单倍型的全基因组关联分析汇总统计量。补充表S4 针对all-WEV的基于单倍型的全基因组关联分析汇总统计量。补充表S5 针对up-MILI的基于单倍型的全基因组关联分析汇总统计量。补充表S6 基于单倍型的全基因组关联分析显著单倍型区块内BHA与UHA的分布情况。补充表S7 39个中国地方鸡种群的基本信息。补充表S8 基于单核苷酸多态性（Single Nucleotide Polymorphism, SNP）的全基因组关联分析P值排名与tSDS值的相关性。补充表S9 针对up-stage的基于典型相关分析（Canonical Correlation Analysis, CCA）的多性状全基因组关联分析汇总统计量。补充表S10 针对sustained-stage的基于典型相关分析的多性状全基因组关联分析汇总统计量。补充表S11 本研究前期研究中采用显著性阈值筛选得到的候选基因。补充表S12 基于单核苷酸多态性全基因组关联分析与基于单倍型全基因组关联分析报道的候选基因优先级排序