Evidence map›Paper›PMID 27087306›Full record

ArticleDatabase : the journal of biological databases and curation2016

Improving HIV proteome annotation: new features of BioAfrica HIV Proteomics Resource.

Megan Druce, Chantal Hulo, Patrick Masson, Paula Sommer, Ioannis Xenarios, Philippe Le Mercier, Tulio De Oliveira

Open access · goldAbstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Database : the journal of biological databases and curation, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 5 papers.

0numbers the graph read from it
0cells of the map it votes in
5citing papers in PubMed
0.9field-weighted citation impact, top 25% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

5 citing papers in PubMed, 9 citations in OpenAlex.

  1. Article
  2. Review
  3. Article
  4. Virologists-Heroes need weapons.PLoS pathogens · 2018
    Article
  5. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

7 authors at 2 institutions in 2 countries.

Megan DruceAfrica 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.
Chantal HuloSwiss-Prot Group, SIB Swiss Institute of Bioinformatics, Geneva, Switzerland.
Patrick MassonSwiss-Prot Group, SIB Swiss Institute of Bioinformatics, Geneva, Switzerland.
Paula SommerDivision of Genetics, School of Life Sciences, University of KwaZulu-Natal, Durban, South Africa.
Ioannis XenariosSwiss-Prot Group, SIB Swiss Institute of Bioinformatics, Geneva, Switzerland.
Philippe Le MercierSwiss-Prot Group, SIB Swiss Institute of Bioinformatics, Geneva, Switzerland.
Tulio De OliveiraAfrica 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.
SIB Swiss Institute of Bioinformatics · CHUniversity of KwaZulu-Natal · ZA

Funding

Medical Research CouncilWellcome Trust 082384/Z/07/Z
6 · The paper itself

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.

Indexed as

InternetDatabases, ProteinHIV-1HIV InfectionsHost-Pathogen InteractionsHumansMolecular Sequence AnnotationProteomeProteomicsViral ProteinsProteomeViral Proteins

Identifiers

PMID27087306
PMCPMC4834208
OpenAlexW2341204806

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.