ViRBase


34723320	ViRBase v3.0: a virus and host ncRNA-associated interaction repository with increased coverage and annotation. [PMID: 34723320] Cheng J, Lin Y, Xu L, Chen K, Li Q, Xu K, Ning L, Kang J, Cui T, Huang Y, Zhao X, Wang D, Wang D, Li Y, Su X, Yang B. Abstract As a means to aid in the investigation of viral infection mechanisms and identification of more effective antivirus targets, the availability of a source which continually collects and updates information on the virus and host ncRNA-associated interaction resources is essential. Here, we update the ViRBase database to version 3.0 (http://www.virbase.org/ or http://www.rna-society.org/virbase/). This update represents a major revision: (i) the total number of interaction entries is now greater than 820,000, an approximately 70-fold increment, involving 116 virus and 36 host organisms, (ii) it supplements and provides more details on RNA annotations (including RNA editing, RNA localization and RNA modification), ncRNA SNP and ncRNA-drug related information and (iii) it provides two additional tools for predicting binding sites (IntaRNA and PRIdictor), a visual plug-in to display interactions and a website which is optimized for more practical and user-friendly operation. Overall, ViRBase v3.0 provides a more comprehensive resource for virus and host ncRNA-associated interactions enabling researchers a more effective means for investigation of viral infections. Nucleic Acids Res. 2022:50(D1) \| 14 Citations (from Europe PMC, 2025-03-15)
25274736	ViRBase: a resource for virus-host ncRNA-associated interactions. [PMID: 25274736] Li Y, Wang C, Miao Z, Bi X, Wu D, Jin N, Wang L, Wu H, Qian K, Li C, Zhang T, Zhang C, Yi Y, Lai H, Hu Y, Cheng L, Leung KS, Li X, Zhang F, Li K, Li X, Wang D. Abstract Increasing evidence reveals that diverse non-coding RNAs (ncRNAs) play critically important roles in viral infection. Viruses can use diverse ncRNAs to manipulate both cellular and viral gene expression to establish a host environment conducive to the completion of the viral life cycle. Many host cellular ncRNAs can also directly or indirectly influence viral replication and even target virus genomes. ViRBase (http://www.rna-society.org/virbase) aims to provide the scientific community with a resource for efficient browsing and visualization of virus-host ncRNA-associated interactions and interaction networks in viral infection. The current version of ViRBase documents more than 12,000 viral and cellular ncRNA-associated virus-virus, virus-host, host-virus and host-host interactions involving more than 460 non-redundant ncRNAs and 4400 protein-coding genes from between more than 60 viruses and 20 hosts. Users can query, browse and manipulate these virus-host ncRNA-associated interactions. ViRBase will be of help in uncovering the generic organizing principles of cellular virus-host ncRNA-associated interaction networks in viral infection. © The Author(s) 2014. Published by Oxford University Press on behalf of Nucleic Acids Research. Nucleic Acids Res. 2015:43(Database issue) \| 52 Citations (from Europe PMC, 2025-03-15)

ViRBase v3.0: a virus and host ncRNA-associated interaction repository with increased coverage and annotation. [PMID: 34723320]

Cheng J, Lin Y, Xu L, Chen K, Li Q, Xu K, Ning L, Kang J, Cui T, Huang Y, Zhao X, Wang D, Wang D, Li Y, Su X, Yang B.

Abstract

As a means to aid in the investigation of viral infection mechanisms and identification of more effective antivirus targets, the availability of a source which continually collects and updates information on the virus and host ncRNA-associated interaction resources is essential. Here, we update the ViRBase database to version 3.0 (http://www.virbase.org/ or http://www.rna-society.org/virbase/). This update represents a major revision: (i) the total number of interaction entries is now greater than 820,000, an approximately 70-fold increment, involving 116 virus and 36 host organisms, (ii) it supplements and provides more details on RNA annotations (including RNA editing, RNA localization and RNA modification), ncRNA SNP and ncRNA-drug related information and (iii) it provides two additional tools for predicting binding sites (IntaRNA and PRIdictor), a visual plug-in to display interactions and a website which is optimized for more practical and user-friendly operation. Overall, ViRBase v3.0 provides a more comprehensive resource for virus and host ncRNA-associated interactions enabling researchers a more effective means for investigation of viral infections.

Nucleic Acids Res. 2022:50(D1) | 14 Citations (from Europe PMC, 2025-03-15)

ViRBase: a resource for virus-host ncRNA-associated interactions. [PMID: 25274736]

Li Y, Wang C, Miao Z, Bi X, Wu D, Jin N, Wang L, Wu H, Qian K, Li C, Zhang T, Zhang C, Yi Y, Lai H, Hu Y, Cheng L, Leung KS, Li X, Zhang F, Li K, Li X, Wang D.

Abstract

Increasing evidence reveals that diverse non-coding RNAs (ncRNAs) play critically important roles in viral infection. Viruses can use diverse ncRNAs to manipulate both cellular and viral gene expression to establish a host environment conducive to the completion of the viral life cycle. Many host cellular ncRNAs can also directly or indirectly influence viral replication and even target virus genomes. ViRBase (http://www.rna-society.org/virbase) aims to provide the scientific community with a resource for efficient browsing and visualization of virus-host ncRNA-associated interactions and interaction networks in viral infection. The current version of ViRBase documents more than 12,000 viral and cellular ncRNA-associated virus-virus, virus-host, host-virus and host-host interactions involving more than 460 non-redundant ncRNAs and 4400 protein-coding genes from between more than 60 viruses and 20 hosts. Users can query, browse and manipulate these virus-host ncRNA-associated interactions. ViRBase will be of help in uncovering the generic organizing principles of cellular virus-host ncRNA-associated interaction networks in viral infection. © The Author(s) 2014. Published by Oxford University Press on behalf of Nucleic Acids Research.

Nucleic Acids Res. 2015:43(Database issue) | 52 Citations (from Europe PMC, 2025-03-15)

URL:	http://www.virbase.org
Full name:	virus-host ncRna interaction database
Description:	ViRBase is a resource for virus-host ncRNA-associated interactions. Version 3.0 documents more than 820,000 virus-host ncRNA-associated interaction entries with experimental and predicted evidence, involving more than 50,000 RNAs between 116 virus and 36 host organism, mainly including Flaviviridea, Polyomaviridae, Herpesviridae, Retroviridae and Coronaviridae etc.
Year founded:	2015
Last update:	2021
Version:	v3.0
Accessibility:	Accessible
Country/Region:	China

Data type:	DNA
Data object:	Virus
Database category:	Interaction
Major species:	Severe acute respiratory syndrome coronavirus 2 Severe acute respiratory syndrome-related coronavirus
Keywords:	ncRNA viral infection

University/Institution:	Southern Medical University
Address:	Department of Bioinformatics, School of Basic Medical Sciences, Southern Medical University, Guangzhou 510515, China
City:	Guangzhou
Province/State:
Country/Region:	China
Contact name (PI/Team):	Dong Wang
Contact email (PI/Helpdesk):	wangdong79@smu.edu.cn

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Database Commons a catalog of worldwide biological databases