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eccDB: a comprehensive repository for eccDNA-mediated chromatin contacts in multi-species.
Yang, Min; Qiu, Bo; He, Guo-You; Zhou, Jian-Yuan; Yu, Hao-Jie; Zhang, Yu-Ying; Li, Yan-Shang; Li, Tai-Song; Guo, Jin-Cheng; Li, Xue-Cang; Xie, Jian-Jun.
Afiliação
  • Yang M; Guangdong Provincial Key Laboratory of Medical Molecular Diagnostics, Institute of Aging Research, Guangdong Medical University, Dongguan 523808, China.
  • Qiu B; Institute of Biochemistry & Molecular Biology, Guangdong Medical University, Zhanjiang 524023, China.
  • He GY; Department of Pathology, Medical College of Jiaying University, Meizhou 514031, China.
  • Zhou JY; Department of Medical Informatics, Harbin Medical University, Daqing Campus, Daqing 163319, China.
  • Yu HJ; Department of Medical Oncology, Qilu Hospital, Cheeloo College of Medicine, Shandong University, Jinan 250012, China.
  • Zhang YY; Department of Medical Informatics, Harbin Medical University, Daqing Campus, Daqing 163319, China.
  • Li YS; Department of Biochemistry and Molecular Biology, Medical College of Shantou University, Shantou 515063, China.
  • Li TS; Department of Biochemistry and Molecular Biology, Medical College of Shantou University, Shantou 515063, China.
  • Guo JC; Department of Biochemistry and Molecular Biology, Medical College of Shantou University, Shantou 515063, China.
  • Li XC; School of Traditional Chinese Medicine, Beijing University of Chinese Medicine, Beijing 100029, China.
  • Xie JJ; Department of Medical Informatics, Harbin Medical University, Daqing Campus, Daqing 163319, China.
Bioinformatics ; 39(4)2023 04 03.
Article em En | MEDLINE | ID: mdl-37018146
ABSTRACT

SUMMARY:

We developed the eccDB database to integrate available resources for extrachromosomal circular DNA (eccDNA) data. eccDB is a comprehensive repository for storing, browsing, searching, and analyzing eccDNAs from multispecies. The database provides regulatory and epigenetic information on eccDNAs, with a focus on analyzing intrachromosomal and interchromosomal interactions to predict their transcriptional regulatory functions. Moreover, eccDB identifies eccDNAs from unknown DNA sequences and analyzes the functional and evolutionary relationships of eccDNAs among different species. Overall, eccDB offers web-based analytical tools and a comprehensive resource for biologists and clinicians to decipher the molecular regulatory mechanisms of eccDNAs. AVAILABILITY AND IMPLEMENTATION eccDB is freely available at http//www.xiejjlab.bio/eccDB.
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Texto completo: 1 Coleções: 01-internacional Base de dados: MEDLINE Assunto principal: DNA Circular / Cromatina Idioma: En Ano de publicação: 2023 Tipo de documento: Article
Texto completo
Imprimir
XML
PubMed Links
Buscar no Google

Texto completo: 1 Coleções: 01-internacional Base de dados: MEDLINE Assunto principal: DNA Circular / Cromatina Idioma: En Ano de publicação: 2023 Tipo de documento: Article