Origin and fate of supergenes in Atlantic cod

NIAID Data Ecosystem2026-03-12 收录

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Input and output files for analyses of divergence times of Gadinae with StarBEAST2 gadinae_starbeast_alignments.tgz gadinae_starbeast.xml gadinae_starbeast.log gadinae_starbeast.trees gadinae_starbeast.tre Input and output files for analyses of divergence times and introgression among Gadus, Arctogadus, and Boreogadus with AIM gadus_arctogadus_boreogadus_aim_alignments.tgz gadus_arctogadus_boreogadus_aim.xml gadus_arctogadus_boreogadus_aim.log gadus_arctogadus_boreogadus_aim.trees gadus_arctogadus_boreogadus_aim_bpp0763.tre gadus_arctogadus_boreogadus_aim_bpp0234.tre Dataset used for analyses of introgression among Gadus, Arctogadus, and Boreogadus with Dsuite gadus_arctogadus_boreogadus_dsuite.vcf.gz Alignments and output trees for analyses of tree-based signals of introgression among Gadus, Arctogadus, and Boreogadus with IQ-TREE gadus_arctogadus_boreogadus_iqtree_alignments.tgz gadus_arctogadus_boreogadus_iqtree_trees.tgz Datasets used for supergene-specific analyses of linkage disequilibrium in Gadus morhua with PLINK gadus_morhua_supergene_lg01_plink.map gadus_morhua_supergene_lg01_plink.ped gadus_morhua_supergene_lg02_plink.map gadus_morhua_supergene_lg02_plink.ped gadus_morhua_supergene_lg07_plink.map gadus_morhua_supergene_lg07_plink.ped gadus_morhua_supergene_lg12_plink.map gadus_morhua_supergene_lg12_plink.ped Input and output files for analyses of divergence times among Gadus morhua populations with SNAPP gadus_morhua_outside_supergenes_snapp.vcf.gz gadus_morhua_outside_supergenes_snapp.xml gadus_morhua_outside_supergenes_snapp.log gadus_morhua_outside_supergenes_snapp.tre gadus_morhua_outside_supergenes_snapp.trees Dataset used for analyses of introgression among Gadus morhua populations with Dsuite gadus_morhua_outside_supergenes_dsuite.vcf.gz Dataset used for analyses of demograpy of Gadus morhua populations with Relate gadus_morhua_outside_supergenes_relate.vcf.gz Input and output files for supergene-specific analyses of divergence times among Gadus morhua populations with SNAPP gadus_morhua_supergene_lg01_snapp.vcf.gz gadus_morhua_supergene_lg01_snapp.xml gadus_morhua_supergene_lg01_snapp.log gadus_morhua_supergene_lg01_snapp.trees gadus_morhua_supergene_lg01_snapp.tre gadus_morhua_supergene_lg02_snapp.vcf.gz gadus_morhua_supergene_lg02_snapp.xml gadus_morhua_supergene_lg02_snapp.log gadus_morhua_supergene_lg02_snapp.trees gadus_morhua_supergene_lg02_snapp.tre gadus_morhua_supergene_lg07_snapp.vcf.gz gadus_morhua_supergene_lg07_snapp.xml gadus_morhua_supergene_lg07_snapp.log gadus_morhua_supergene_lg07_snapp.trees gadus_morhua_supergene_lg07_snapp.tre gadus_morhua_supergene_lg12_snapp.vcf.gz gadus_morhua_supergene_lg12_snapp.xml gadus_morhua_supergene_lg12_snapp.log gadus_morhua_supergene_lg12_snapp.trees gadus_morhua_supergene_lg12_snapp.tre Datasets used for supergene-specific analyses of introgression among Gadus morhua populations with Dsuite gadus_morhua_supergene_lg01_dsuite.vcf.gz gadus_morhua_supergene_lg02_dsuite.vcf.gz gadus_morhua_supergene_lg07_dsuite.vcf.gz gadus_morhua_supergene_lg12_dsuite.vcf.gz Datasets used for supergene-specific analyses of demograpy of Gadus morhua populations with Relate gadus_morhua_supergene_lg01_relate.vcf.gz gadus_morhua_supergene_lg02_relate.vcf.gz gadus_morhua_supergene_lg07_relate.vcf.gz gadus_morhua_supergene_lg12_relate.vcf.gz

基于StarBEAST2（StarBEAST2）对鳕亚科（Gadinae）的分歧时间开展分析所用的输入与输出文件 gadinae_starbeast_alignments.tgz gadinae_starbeast.xml gadinae_starbeast.log gadinae_starbeast.trees gadinae_starbeast.tre 基于AIM（AIM）对鳕属（Gadus）、北鳕属（Arctogadus）及极地鳕属（Boreogadus）之间的分歧时间与基因渐渗现象开展分析所用的输入与输出文件 gadus_arctogadus_boreogadus_aim_alignments.tgz gadus_arctogadus_boreogadus_aim.xml gadus_arctogadus_boreogadus_aim.log gadus_arctogadus_boreogadus_aim.trees gadus_arctogadus_boreogadus_aim_bpp0763.tre gadus_arctogadus_boreogadus_aim_bpp0234.tre 基于Dsuite（Dsuite）对鳕属、北鳕属及极地鳕属之间的基因渐渗现象开展分析所用的数据集 gadus_arctogadus_boreogadus_dsuite.vcf.gz 基于IQ-TREE（IQ-TREE）对鳕属、北鳕属及极地鳕属之间的基因渐渗树信号开展分析所用的比对文件与输出树文件 gadus_arctogadus_boreogadus_iqtree_alignments.tgz gadus_arctogadus_boreogadus_iqtree_trees.tgz 基于PLINK（PLINK）对大西洋鳕（Gadus morhua）开展超基因特异性连锁不平衡分析所用的数据集 gadus_morhua_supergene_lg01_plink.map gadus_morhua_supergene_lg01_plink.ped gadus_morhua_supergene_lg02_plink.map gadus_morhua_supergene_lg02_plink.ped gadus_morhua_supergene_lg07_plink.map gadus_morhua_supergene_lg07_plink.ped gadus_morhua_supergene_lg12_plink.map gadus_morhua_supergene_lg12_plink.ped 基于SNAPP（SNAPP）对大西洋鳕种群的分歧时间开展分析所用的输入与输出文件 gadus_morhua_outside_supergenes_snapp.vcf.gz gadus_morhua_outside_supergenes_snapp.xml gadus_morhua_outside_supergenes_snapp.log gadus_morhua_outside_supergenes_snapp.tre gadus_morhua_outside_supergenes_snapp.trees 基于Dsuite对大西洋鳕种群之间的基因渐渗现象开展分析所用的数据集 gadus_morhua_outside_supergenes_dsuite.vcf.gz 基于Relate（Relate）对大西洋鳕种群的群体历史开展分析所用的数据集 gadus_morhua_outside_supergenes_relate.vcf.gz 基于SNAPP对大西洋鳕种群开展超基因特异性分歧时间分析所用的输入与输出文件 gadus_morhua_supergene_lg01_snapp.vcf.gz gadus_morhua_supergene_lg01_snapp.xml gadus_morhua_supergene_lg01_snapp.log gadus_morhua_supergene_lg01_snapp.trees gadus_morhua_supergene_lg01_snapp.tre gadus_morhua_supergene_lg02_snapp.vcf.gz gadus_morhua_supergene_lg02_snapp.xml gadus_morhua_supergene_lg02_snapp.log gadus_morhua_supergene_lg02_snapp.trees gadus_morhua_supergene_lg02_snapp.tre gadus_morhua_supergene_lg07_snapp.vcf.gz gadus_morhua_supergene_lg07_snapp.xml gadus_morhua_supergene_lg07_snapp.log gadus_morhua_supergene_lg07_snapp.trees gadus_morhua_supergene_lg07_snapp.tre gadus_morhua_supergene_lg12_snapp.vcf.gz gadus_morhua_supergene_lg12_snapp.xml gadus_morhua_supergene_lg12_snapp.log gadus_morhua_supergene_lg12_snapp.trees gadus_morhua_supergene_lg12_snapp.tre 基于Dsuite对大西洋鳕种群开展超基因特异性基因渐渗分析所用的数据集 gadus_morhua_supergene_lg01_dsuite.vcf.gz gadus_morhua_supergene_lg02_dsuite.vcf.gz gadus_morhua_supergene_lg07_dsuite.vcf.gz gadus_morhua_supergene_lg12_dsuite.vcf.gz 基于Relate对大西洋鳕种群开展超基因特异性群体历史分析所用的数据集 gadus_morhua_supergene_lg01_relate.vcf.gz gadus_morhua_supergene_lg02_relate.vcf.gz gadus_morhua_supergene_lg07_relate.vcf.gz gadus_morhua_supergene_lg12_relate.vcf.gz

创建时间：

2021-08-01

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