文献类型： 外文期刊

作者： Yang, Zhiquan ¹ ; Luo, Chengfang ² ; Pei, Xinxin ¹ ; Wang, Shengbo ² ; Huang, Yiming ² ; Li, Jiawei ² ; Liu, Baohui ¹ ; Kong, Fanjiang ¹ ; Yang, Qing-Yong ² ; Fang, Chao ¹ ;

作者机构： 1.Guangzhou Univ, Innovat Ctr Mol Genet & Evolut, Sch Life Sci, Guangdong Key Lab Plant Adaptat & Mol Design, Guangzhou 510405, Peoples R China

2.Huazhong Agr Univ, Natl Key Lab Crop Genet Improvement, Hubei Hongshan Lab, Wuhan 430070, Peoples R China

3.Huazhong Agr Univ, Coll Informat, Hubei Key Lab Agr Bioinformat, Wuhan 430070, Peoples R China

4.Xinjiang Acad Agr Reclamat Sci, State Key Lab Sheep Genet Improvement & Hlth Prod, Shihezi 832000, 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： Advanced multi-omics technologies offer much information that can uncover the regulatory mechanisms from genotype to phenotype. In soybean, numerous multi-omics databases have been published. Although they cover multiple omics, there are still limitations when it comes to the types and scales of omics datasets and analysis methods utilized. This study aims to address these limitations by collecting and integrating a comprehensive set of multi-omics datasets. This includes 38 genomes, transcriptomes from 435 tissue samples, 125 phenotypes from 6686 accessions, epigenome data involving histone modification, transcription factor binding, chromosomal accessibility and chromosomal interaction, as well as genetic variation data from 24 501 soybean accessions. Then, common analysis pipelines and statistical methods were applied to mine information from these multi-omics datasets, resulting in the successful establishment of a user-friendly multi-omics database called SoyMD (https://yanglab.hzau.edu.cn/SoyMD/#/). SoyMD provides researchers with efficient query options and analysis tools, allowing them to swiftly access relevant omics information and conduct comprehensive multi-omics data analyses. Another notable feature of SoyMD is its capability to facilitate the analysis of candidate genes, as demonstrated in the case study on seed oil content. This highlights the immense potential of SoyMD in soybean genetic breeding and functional genomics research. [GRAPHICS] .