The search for sexually antagonistic genes: practical insights from studies of local adaptation and statistical genomics

In this study, we compare male female Fst of published datasets on a SNP per SNP basis to a null expected distribution. This re-analyis include three datasets : Dutoit et al. 2018 using 95,974 sites sequenced for 47 males and 47 females. All the sites are in coding sequences (no missing data).Minor allele frequency(i.e. MAF)>0.05 Flanagan and Jones 2017 using 44,773 sites RAD-Seq generated SNPs, 57 females and 167 males. Up to 50% missing data. Number of sequenced alleles saved for each sex at each site. MAF>0.05 1000 Human genomes. 1233 males and 1271 females. 7,477 sites. All the sites are in coding sequences. MAF>0.05

本研究中，我们以逐SNP（Single Nucleotide Polymorphism，单核苷酸多态性）为单位，将已发布数据集的男女群体分化指数Fst（Fixation Index）与零期望分布进行比对。本次重分析包含三个数据集：
1. Dutoit等人2018年数据集：针对47名男性与47名女性对95974个位点开展测序，所有位点均位于编码序列内，无缺失数据，次要等位基因频率（Minor Allele Frequency, MAF）>0.05。
2. Flanagan与Jones 2017年数据集：通过RAD-Seq（Restriction-site Associated DNA Sequencing，限制性位点关联DNA测序）生成44773个SNP位点，纳入57名女性与167名男性样本，允许最高50%的缺失数据，保留每个位点在各性别中的测序等位基因计数，次要等位基因频率>0.05。
3. 1000人类基因组（1000 Human Genomes）数据集：包含1233名男性与1271名女性样本，共7477个位点，所有位点均位于编码序列内，次要等位基因频率>0.05。