JASPAR 2024:转录因子结合概况的开放数据库成立20周年
Ieva Rauluseviciute1, Rafael Riudavets-Puig1, Romain Blanc-Mathieu2
1Centre for Molecular Medicine Norway (NCMM), Nordic EMBL Partnership, University of Oslo, 0318 Oslo, Norway.
Nucleic acids research
|November 14, 2023
概括
JASPAR 2024数据库更新显著扩展了其转录因子结合配置文件的集合,增强了TF-DNA相互作用预测. 新功能提高了研究基因调节的研究人员的数据可访问性和可用性.
科学领域:
- 基因组学就是基因组学.
- 分子生物学分子生物学
- 生物信息学是一种生物信息学.
背景情况:
- 贾斯帕 (JASPAR) 是一个领先的对转录因子 (TF) DNA 结合特征的开放访问数据库.
- TF结合部位 (TFBS) 预测对于理解基因调节至关重要.
研究的目的:
- 宣布JASPAR数据库的第10次发布和20周年更新.
- 详细介绍 CORE 收藏的扩展以及对现有资料的改进.
- 为研究人员引入新的工具和数据可访问性功能.
主要方法:
- 用于转录因子的高质量,非冗余的DNA结合配置文件的手工策划.
- 扩大CORE收藏,增加329个新档案,并更新现有的档案.
- 应用一个修剪算法,通过删除含量低的边缘区域来增强配置信息性.
主要成果:
- 在JASPAR 2024更新中,引入了329个新的CORE配置文件,比之前的版本增加了20%.
- 增强的元数据包括植物TF DNA结合域的精细分类.
- 更新了8种生物体中预测TFBS的基因组轨迹,人类和小鼠的轨迹集成到UCSC Genome浏览器中.
结论:
- JASPAR 2024版本为TF约束性分析提供了大幅扩展和改进的资源.
- 新功能,包括TFBS提取工具和增强的程序访问,促进TF-DNA相互作用研究.
- 该数据库继续成为基因组学和分子生物学社区的重要资源.
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