title: Improving HIV proteome annotation: new features of BioAfrica HIV Proteomics Resource.
abstract: The Human Immunodeficiency Virus (HIV) is one of the pathogens that cause the greatest global concern, with approximately 35 million people currently infected with HIV. Extensive HIV research has been performed, generating a large amount of HIV and host genomic data. However, no effective vaccine that protects the host from HIV infection is available and HIV is still spreading at an alarming rate, despite effective antiretroviral (ARV) treatment. In order to develop effective therapies, we need to expand our knowledge of the interaction between HIV and host proteins. In contrast to virus proteins, which often rapidly evolve drug resistance mutations, the host proteins are essentially invariant within all humans. Thus, if we can identify the host proteins needed for virus replication, such as those involved in transporting viral proteins to the cell surface, we have a chance of interrupting viral replication. There is no proteome resource that summarizes this interaction, making research on this subject a difficult enterprise. In order to fill this gap in knowledge, we curated a resource presents detailed annotation on the interaction between the HIV proteome and host proteins. Our resource was produced in collaboration with ViralZone and used manual curation techniques developed by UniProtKB/Swiss-Prot. Our new website also used previous annotations of the BioAfrica HIV-1 Proteome Resource, which has been accessed by approximately 10 000 unique users a year since its inception in 2005. The novel features include a dedicated new page for each HIV protein, a graphic display of its function and a section on its interaction with host proteins. Our new webpages also add information on the genomic location of each HIV protein and the position of ARV drug resistance mutations. Our improved BioAfrica HIV-1 Proteome Resource fills a gap in the current knowledge of biocuration.Database URL:http://www.bioafrica.net/proteomics/HIVproteome.html.
authors.affiliation: Africa Centre for Population Health, School of Laboratory Medicine and Medical Sciences, Nelson R. Mandela School of Medicine, College of Health Sciences, University of KwaZulu-Natal, Durban, South Africa Division of Genetics, School of Life Sciences, University of KwaZulu-Natal, Durban, South Africa.
authors.forename: Megan
authors.initials: M
authors.lastname: Druce
authors.affiliation: Swiss-Prot Group, SIB Swiss Institute of Bioinformatics, Geneva, Switzerland.
authors.forename: Chantal
authors.initials: C
authors.lastname: Hulo
authors.affiliation: Swiss-Prot Group, SIB Swiss Institute of Bioinformatics, Geneva, Switzerland.
authors.forename: Patrick
authors.initials: P
authors.lastname: Masson
authors.affiliation: Division of Genetics, School of Life Sciences, University of KwaZulu-Natal, Durban, South Africa.
authors.forename: Paula
authors.initials: P
authors.lastname: Sommer
authors.affiliation: Swiss-Prot Group, SIB Swiss Institute of Bioinformatics, Geneva, Switzerland.
authors.forename: Ioannis
authors.initials: I
authors.lastname: Xenarios
authors.affiliation: Swiss-Prot Group, SIB Swiss Institute of Bioinformatics, Geneva, Switzerland.
authors.forename: Philippe
authors.initials: P
authors.lastname: Le Mercier
authors.affiliation: Africa Centre for Population Health, School of Laboratory Medicine and Medical Sciences, Nelson R. Mandela School of Medicine, College of Health Sciences, University of KwaZulu-Natal, Durban, South Africa tuliodna@gmail.com tdeoliveira@africacentre.ac.za.
authors.forename: Tulio
authors.initials: T
authors.lastname: De Oliveira
mesh_terms: D030562:Databases, Protein; D015658:HIV Infections / Q000821:virology*; D015497:HIV-1 / Q000378:metabolism*; D054884:Host-Pathogen Interactions; D006801:Humans; D020407:Internet; D058977:Molecular Sequence Annotation / Q000379:methods*; D020543:Proteome / Q000737:chemistry* / Q000145:classification; D040901:Proteomics / Q000379:methods; D014764:Viral Proteins / Q000737:chemistry* / Q000145:classification
chemical_list: D020543:Proteome; D014764:Viral Proteins