文献类型： 外文期刊

作者： Zhang, Kaili ¹ ; Liang, Jiete ¹ ; Fu, Yuhua ¹ ; Chu, Jinyu ¹ ; Fu, Liangliang ¹ ; Wang, Yongfei ¹ ; Li, Wangjiao ¹ ; Zhou, You ¹ ; Li, Jinhua ¹ ; Yin, Xiaoxiao ¹ ; Wang, Haiyan ¹ ; Liu, Xiaolei ¹ ; Mou, Chunyan ⁶ ; Wang, Chonglong ⁷ ; Wang, Heng ⁸ ; Dong, Xinxing ⁹ ; Yan, Dawei ⁹ ; Yu, Mei ¹ ; Zhao, Shuhong ¹ ; Li, Xinyun ¹ ; Ma, Yunlong ¹ ;

作者机构： 1.Huazhong Agr Univ, Key Lab Agr Anim Genet Breeding & Reprod, Minist Educ, Wuhan 430070, Peoples R China

2.Huazhong Agr Univ, Key Lab Swine Genet & Breeding, Minist Agr, Wuhan 430070, Peoples R China

3.Hubei Hongshan Lab, Wuhan 430070, Peoples R China

4.Huazhong Agr Univ, Cooperat Innovat Ctr Sustainable Pig Prod, Wuhan 430070, Peoples R China

5.Huazhong Agr Univ, Coll Informat, Wuhan 430070, Peoples R China

6.Southwest Univ, Coll Anim Sci & Technol, Chongqing 402460, Peoples R China

7.Anhui Acad Agr Sci, Inst Anim Husb & Vet Med, Key Lab Pig Mol Quantitat Genet, Anhui Prov Key Lab Livestock & Poultry Prod Safety, Hefei 230031, Peoples R China

8.Shandong Agr Univ, Coll Anim Sci & Technol, Tai An 271018, Peoples R China

9.Yunnan Agr Univ, Fac Anim Sci & Technol, Kunming 650201, Peoples R China

10.Lingnan Modern Agr Sci & Technol Guangdong Lab, Guangzhou 510642, Peoples R China

期刊名称：NUCLEIC ACIDS RESEARCH （ 影响因子：14.9； 五年影响因子：16.4 ）

ISSN： 0305-1048

年卷期： 2023 年

页码：

收录情况： SCI

摘要： The high cost of large-scale, high-coverage whole-genome sequencing has limited its application in genomics and genetics research. The common approach has been to impute whole-genome sequence variants obtained from a few individuals for a larger population of interest individually genotyped using SNP chip. An alternative involves low-coverage whole-genome sequencing (lcWGS) of all individuals in the larger population, followed by imputation to sequence resolution. To overcome limitations of processing lcWGS data and meeting specific genotype imputation requirements, we developed AGIDB (https://agidb.pro), a website comprising tools and database with an unprecedented sample size and comprehensive variant decoding for animals. AGIDB integrates whole-genome sequencing and chip data from 17 360 and 174 945 individuals, respectively, across 89 species to identify over one billion variants, totaling a massive 688.57 TB of processed data. AGIDB focuses on integrating multiple genotype imputation scenarios. It also provides user-friendly searching and data analysis modules that enable comprehensive annotation of genetic variants for specific populations. To meet a wide range of research requirements, AGIDB offers downloadable reference panels for each species in addition to its extensive dataset, variant decoding and utility tools. We hope that AGIDB will become a key foundational resource in genetics and breeding, providing robust support to researchers. Graphical Abstract