TeCD: The eccDNA Collection Database for extrachromosomal circular DNA.
TeCD: The eccDNA Collection Database for extrachromosomal circular DNA.
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TECD：用于外圆外圆形DNA的ECCDNA收集数据库。
DOI：
10.1186/s12864-023-09135-5
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发表时间：
2023-01-27
期刊：
影响因子：
4.4
通讯作者：
Liu, Xiaoping
中科院分区：
文献类型：
--
作者：
Guo, Jing;Zhang, Ze;Li, Qingcui;Chang, Xiao;Liu, Xiaoping
染色体外环状DNA（eccDNA）是一种广泛存在于真核细胞中的DNA。近年来的研究表明，eccDNA在肿瘤和衰老过程中经常富集，并以特殊的方式参与细胞生理活动的发展，因此越来越受到人们的关注，也成为现代生物学研究中一个重要的新课题。我们建立了一个数据库，收集eccDNA，包括动物，植物和真菌，并为研究人员提供了一个eccDNA检索平台。收集的eccDNA以统一的格式进行处理，并根据其所属的物种和来源的染色体进行分类。每个eccDNA记录包含序列长度、相应染色体上的起始和终止位点、碱基的顺序、基因组元件如基因和转座子以及相应测序实验中的其他信息。将所有数据存储到TeCD（The eccDNA Collection Database）中，并将BLAST（Basic Local Alignment Search Tool）序列比对功能也添加到数据库中以分析潜在的eccDNA序列。我们建立了一个用户检索和获取eccDNA数据的平台TeCD，并分析了eccDNA可能的潜在功能。这些发现可能为今后进一步探讨eccDNA的生物学意义提供了基础和方向。
Extrachromosomal circular DNA (eccDNA) is a kind of DNA that widely exists in eukaryotic cells. Studies in recent years have shown that eccDNA is often enriched during tumors and aging, and participates in the development of cell physiological activities in a special way, so people have paid more and more attention to the eccDNA, and it has also become a critical new topic in modern biological research. We built a database to collect eccDNA, including animals, plants and fungi, and provide researchers with an eccDNA retrieval platform. The collected eccDNAs were processed in a uniform format and classified according to the species to which it belongs and the chromosome of the source. Each eccDNA record contained sequence length, start and end sites on the corresponding chromosome, order of the bases, genomic elements such as genes and transposons, and other information in the respective sequencing experiment. All the data were stored into the TeCD (The eccDNA Collection Database) and the BLAST (Basic Local Alignment Search Tool) sequence alignment function was also added into the database for analyzing the potential eccDNA sequences. We built TeCD, a platform for users to search and obtain eccDNA data, and analyzed the possible potential functions of eccDNA. These findings may provide a basis and direction for researchers to further explore the biological significance of eccDNA in the future.
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