Database refinement efforts were initiated from RVDBv19.0. These include removal of misannotated sequences and irrelevant viral sequences in U-RVDB, before clustering. Please refer to the Annotation Sheet for further details.
The SQLite form of U-RVDB is provided using the sqlite3 module available in python, as described by GitHub. From version 15.1 and thereafter, the RVDB SQLDB is converted to SQLite to provide a flexible import format.
A proteic version of RVDB, was developed by Marc Eloit’s group at Institut Pasteur (RVDB-prot and RVDB-prot-HMM). The proteic RVDB may be used to complement analysis using these nucleotidic databases.
Unclustered (U-) nucleotide sequence files.
Clustered (C-) nucleotide sequence files.
Goodacre N, Aljanahi A, Nandakumar S, Mikailov M, Khan AS. A Reference Viral Database (RVDB) To Enhance Bioinformatics Analysis of High-Throughput Sequencing for Novel Virus Detection. mSphere. 2018 Mar 14;3(2). pii: e00069-18. doi: 10.1128/mSphereDirect.00069-18. eCollection 2018 Mar-Apr. PubMed PMID: 29564396; PubMed Central PMCID: PMC5853486.
If you have any questions or comments regarding RVDB nucleotidic databases, please contact Arifa Khan (Arifa.Khan@fda.hhs.gov). If you have any technical questions or comments regarding the website, please contact the Bioinformatics Core at University of Delaware firstname.lastname@example.org.