HCVpro: Hepatitis C virus protein interaction database

Samuel K. Kwofie; Ulf Schaefer; Vijayaraghava S. Sundararajan; Vladimir B. Bajic; Alan Christoffels

doi:10.1016/j.meegid.2011.09.001

HCVpro: Hepatitis C virus protein interaction database

Samuel K. Kwofie^*, Ulf Schaefer, Vijayaraghava S. Sundararajan, Vladimir B. Bajic, Alan Christoffels

^*Corresponding author for this work

Research output: Contribution to journal › Article › peer-review

72 Citations (Scopus)

Abstract

It is essential to catalog characterized hepatitis C virus (HCV) protein-protein interaction (PPI) data and the associated plethora of vital functional information to augment the search for therapies, vaccines and diagnostic biomarkers. In furtherance of these goals, we have developed the hepatitis C virus protein interaction database (HCVpro) by integrating manually verified hepatitis C virus-virus and virus-human protein interactions curated from literature and databases. HCVpro is a comprehensive and integrated HCV-specific knowledgebase housing consolidated information on PPIs, functional genomics and molecular data obtained from a variety of virus databases (VirHostNet, VirusMint, HCVdb and euHCVdb), and from BIND and other relevant biology repositories. HCVpro is further populated with information on hepatocellular carcinoma (HCC) related genes that are mapped onto their encoded cellular proteins. Incorporated proteins have been mapped onto Gene Ontologies, canonical pathways, Online Mendelian Inheritance in Man (OMIM) and extensively cross-referenced to other essential annotations. The database is enriched with exhaustive reviews on structure and functions of HCV proteins, current state of drug and vaccine development and links to recommended journal articles. Users can query the database using specific protein identifiers (IDs), chromosomal locations of a gene, interaction detection methods, indexed PubMed sources as well as HCVpro, BIND and VirusMint IDs. The use of HCVpro is free and the resource can be accessed via http://apps.sanbi.ac.za/hcvpro/ or http://cbrc.kaust.edu.sa/hcvpro/.

Original language	English
Pages (from-to)	1971-1977
Number of pages	7
Journal	Infection, Genetics and Evolution
Volume	11
Issue number	8
DOIs	https://doi.org/10.1016/j.meegid.2011.09.001
Publication status	Published - Dec 2011
Externally published	Yes

Bibliographical note

Funding Information:
This work was partly supported by grants from the National Research Foundation (South Africa) , National Bioinformatics Network (to S.K.K.) and DST/NRF Research Chair (to A.C. and V.B.B.).

Keywords

Curation
Database
Hepatitis C virus
Hepatocellular carcinoma
Network
Protein-protein interaction

UN SDGs

This output contributes to the following UN Sustainable Development Goals (SDGs)

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10.1016/j.meegid.2011.09.001

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title = "HCVpro: Hepatitis C virus protein interaction database",

abstract = "It is essential to catalog characterized hepatitis C virus (HCV) protein-protein interaction (PPI) data and the associated plethora of vital functional information to augment the search for therapies, vaccines and diagnostic biomarkers. In furtherance of these goals, we have developed the hepatitis C virus protein interaction database (HCVpro) by integrating manually verified hepatitis C virus-virus and virus-human protein interactions curated from literature and databases. HCVpro is a comprehensive and integrated HCV-specific knowledgebase housing consolidated information on PPIs, functional genomics and molecular data obtained from a variety of virus databases (VirHostNet, VirusMint, HCVdb and euHCVdb), and from BIND and other relevant biology repositories. HCVpro is further populated with information on hepatocellular carcinoma (HCC) related genes that are mapped onto their encoded cellular proteins. Incorporated proteins have been mapped onto Gene Ontologies, canonical pathways, Online Mendelian Inheritance in Man (OMIM) and extensively cross-referenced to other essential annotations. The database is enriched with exhaustive reviews on structure and functions of HCV proteins, current state of drug and vaccine development and links to recommended journal articles. Users can query the database using specific protein identifiers (IDs), chromosomal locations of a gene, interaction detection methods, indexed PubMed sources as well as HCVpro, BIND and VirusMint IDs. The use of HCVpro is free and the resource can be accessed via http://apps.sanbi.ac.za/hcvpro/ or http://cbrc.kaust.edu.sa/hcvpro/.",

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note = "Funding Information: This work was partly supported by grants from the National Research Foundation (South Africa) , National Bioinformatics Network (to S.K.K.) and DST/NRF Research Chair (to A.C. and V.B.B.). ",

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AU - Sundararajan, Vijayaraghava S.

AU - Bajic, Vladimir B.

AU - Christoffels, Alan

N1 - Funding Information: This work was partly supported by grants from the National Research Foundation (South Africa) , National Bioinformatics Network (to S.K.K.) and DST/NRF Research Chair (to A.C. and V.B.B.).

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N2 - It is essential to catalog characterized hepatitis C virus (HCV) protein-protein interaction (PPI) data and the associated plethora of vital functional information to augment the search for therapies, vaccines and diagnostic biomarkers. In furtherance of these goals, we have developed the hepatitis C virus protein interaction database (HCVpro) by integrating manually verified hepatitis C virus-virus and virus-human protein interactions curated from literature and databases. HCVpro is a comprehensive and integrated HCV-specific knowledgebase housing consolidated information on PPIs, functional genomics and molecular data obtained from a variety of virus databases (VirHostNet, VirusMint, HCVdb and euHCVdb), and from BIND and other relevant biology repositories. HCVpro is further populated with information on hepatocellular carcinoma (HCC) related genes that are mapped onto their encoded cellular proteins. Incorporated proteins have been mapped onto Gene Ontologies, canonical pathways, Online Mendelian Inheritance in Man (OMIM) and extensively cross-referenced to other essential annotations. The database is enriched with exhaustive reviews on structure and functions of HCV proteins, current state of drug and vaccine development and links to recommended journal articles. Users can query the database using specific protein identifiers (IDs), chromosomal locations of a gene, interaction detection methods, indexed PubMed sources as well as HCVpro, BIND and VirusMint IDs. The use of HCVpro is free and the resource can be accessed via http://apps.sanbi.ac.za/hcvpro/ or http://cbrc.kaust.edu.sa/hcvpro/.

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KW - Hepatocellular carcinoma

KW - Network

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VL - 11

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JO - Infection, Genetics and Evolution

JF - Infection, Genetics and Evolution

IS - 8

ER -

HCVpro: Hepatitis C virus protein interaction database

Abstract

Bibliographical note

Keywords

UN SDGs

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