USDA-ARS Corn Insects and Crop Genetics Research Unit, Ames, IA, USA.
ORISE Fellow USDA-ARS Corn Insects and Crop Genetics Research Unit, Ames, IA, USA.
Nucleic Acids Res. 2021 Jan 8;49(D1):D1496-D1501. doi: 10.1093/nar/gkaa1107.
SoyBase, a USDA genetic and genomics database, holds professionally curated soybean genetic and genomic data, which is integrated and made accessible to researchers and breeders. The site holds several reference genome assemblies, as well as genetic maps, thousands of mapped traits, expression and epigenetic data, pedigree information, and extensive variant and genotyping data sets. SoyBase displays include genetic, genomic, and epigenetic maps of the soybean genome. Gene expression data is presented in the genome viewer as heat maps and pictorial and tabular displays in gene report pages. Millions of sequence variants have been added, representing variations across various collections of cultivars. This variant data is explorable using new interactive tools to visualize the distribution of those variants across the genome, between selected accessions. SoyBase holds several reference-quality soybean genome assemblies, accessible via various query tools and browsers, including a new visualization system for exploring the soybean pan-genome. SoyBase also serves as a nexus of announcements pertinent to the greater soybean research community. The database also includes a soybean-specific anatomic and biochemical trait ontology. The database can be accessed at https://soybase.org.
SoyBase 是美国农业部的一个遗传和基因组学数据库，它拥有专业管理的大豆遗传和基因组数据，这些数据经过整合并提供给研究人员和培育者使用。该网站拥有多个参考基因组组装，以及遗传图谱、数千个已映射的特征、表达和表观遗传数据、系谱信息以及广泛的变异和基因分型数据集。SoyBase 展示了大豆基因组的遗传、基因组和表观遗传图谱。基因表达数据在基因组浏览器中以热图形式呈现，并在基因报告页面中以图形和表格形式显示。已经添加了数百万个序列变异，代表了不同品种集合之间的变异。使用新的交互式工具可以探索这些变体在基因组中的分布情况，以及在选定的品系之间的分布情况。SoyBase 拥有多个参考质量的大豆基因组组装，可以通过各种查询工具和浏览器访问，包括一个用于探索大豆泛基因组的新可视化系统。SoyBase 还作为一个与更大的大豆研究社区相关的公告枢纽。该数据库还包括一个大豆特有的解剖学和生物化学特征本体。该数据库可在 https://soybase.org 上访问。
