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Relational Data Models for Genetic VCF data

delete2025-07-01
delete0
PRE
AI
M
Mohamed Hafidi *
O
Ozan Kahramanoğulları
A
Anton Dignös
J
Johann Gamper
DOI：10.14778/3749646.3749674delete
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摘要

摘要

En 中文
变体调用格式（VCF）及其二进制对应格式（BCF）在生物信息学中常用于存储基因序列数据。虽然VCF文件提供紧凑存储，但查询时需要特定工具和脚本，从而缺乏数据库管理系统的丰富功能库及其在多组学流程中的集成潜力。本文利用关系数据库管理系统（RDBMS）来提升大规模遗传数据集存储和查询的效率与灵活性。我们将VCF文件结构映射为窄表、宽表和基于数组的数据模型，并进一步通过JSON数据结构进行细化，最终形成八种数据模型。我们的实验评估表明，RDBMS在性能上可与尖端专用工具相媲美，同时为遗传数据分析提供了完整的数据库功能。

期刊

P
Proceedings of the VLDB Endowment
IF:
3.3
论文数:
563
被引数:
1.2W

机构

F
Free University of Bozen-Bolzano
学者数:
2.8K
论文数: 2.6K
被引数: 6
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