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HIV-1, human interaction database: current status and new features.

Ako-Adjei D, Fu W, Wallin C, Katz KS, Song G, Darji D, Brister JR, Ptak RG, Pruitt KD - Nucleic Acids Res. (2014)

Bottom Line: In addition to specific HIV-1 protein-human protein interactions, included are interaction effects upon HIV-1 replication resulting when individual human gene expression is blocked using siRNA.Together the data identifies 4006 human genes involved in 14,102 interactions.With the inclusion of siRNA interactions we introduce a redesigned web interface to enhance viewing, filtering and downloading of the combined data set.

View Article: PubMed Central - PubMed

Affiliation: National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, 8600 Rockville Pike, Bethesda, MD 20894, USA.

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NCBI Gene report of HIV-1 Interactions. If involved in a protein–protein or siRNA established interaction the report page for such a human gene includes a section entitled ‘HIV-1 Interactions’ shown here. (A) Interactions described by siRNA (‘Replication Interactions’). (B) Protein–protein interactions. In both cases a description of the interaction is displayed as well as a link to the publication(s) supporting the described interaction. Included is a link to the main site for the HIV-1 Interaction Database.
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Figure 1: NCBI Gene report of HIV-1 Interactions. If involved in a protein–protein or siRNA established interaction the report page for such a human gene includes a section entitled ‘HIV-1 Interactions’ shown here. (A) Interactions described by siRNA (‘Replication Interactions’). (B) Protein–protein interactions. In both cases a description of the interaction is displayed as well as a link to the publication(s) supporting the described interaction. Included is a link to the main site for the HIV-1 Interaction Database.

Mentions: Protein and replication interactions are reported in the HIV-1 Interactions section of the Gene report page (Figure 1); a link in the Gene report table of contents facilitates navigation to this section. Separate tables reporting one to many interaction descriptions are provided for each interaction type. For instance, the human gene for acetyl-CoA carboxylase beta (ACACB; GeneID 32) has a record with both replication and protein interaction data (Figure 1). The Gene database supports searching for HIV-1, human interaction data using properties (‘hiv1_protein_interactions[property]’ and ‘hiv1_replication_interactions[property]’). The data can also be queried, filtered and downloaded through the dedicated interactions web site described below. These interaction data are also reported in the Gene FTP site (ftp://ftp.ncbi.nlm.nih.gov/gene/GeneRIF/ in files hiv_interactions and hiv_siRNA_interactions).


HIV-1, human interaction database: current status and new features.

Ako-Adjei D, Fu W, Wallin C, Katz KS, Song G, Darji D, Brister JR, Ptak RG, Pruitt KD - Nucleic Acids Res. (2014)

NCBI Gene report of HIV-1 Interactions. If involved in a protein–protein or siRNA established interaction the report page for such a human gene includes a section entitled ‘HIV-1 Interactions’ shown here. (A) Interactions described by siRNA (‘Replication Interactions’). (B) Protein–protein interactions. In both cases a description of the interaction is displayed as well as a link to the publication(s) supporting the described interaction. Included is a link to the main site for the HIV-1 Interaction Database.
© Copyright Policy
Related In: Results  -  Collection

Show All Figures
getmorefigures.php?uid=PMC4383939&req=5

Figure 1: NCBI Gene report of HIV-1 Interactions. If involved in a protein–protein or siRNA established interaction the report page for such a human gene includes a section entitled ‘HIV-1 Interactions’ shown here. (A) Interactions described by siRNA (‘Replication Interactions’). (B) Protein–protein interactions. In both cases a description of the interaction is displayed as well as a link to the publication(s) supporting the described interaction. Included is a link to the main site for the HIV-1 Interaction Database.
Mentions: Protein and replication interactions are reported in the HIV-1 Interactions section of the Gene report page (Figure 1); a link in the Gene report table of contents facilitates navigation to this section. Separate tables reporting one to many interaction descriptions are provided for each interaction type. For instance, the human gene for acetyl-CoA carboxylase beta (ACACB; GeneID 32) has a record with both replication and protein interaction data (Figure 1). The Gene database supports searching for HIV-1, human interaction data using properties (‘hiv1_protein_interactions[property]’ and ‘hiv1_replication_interactions[property]’). The data can also be queried, filtered and downloaded through the dedicated interactions web site described below. These interaction data are also reported in the Gene FTP site (ftp://ftp.ncbi.nlm.nih.gov/gene/GeneRIF/ in files hiv_interactions and hiv_siRNA_interactions).

Bottom Line: In addition to specific HIV-1 protein-human protein interactions, included are interaction effects upon HIV-1 replication resulting when individual human gene expression is blocked using siRNA.Together the data identifies 4006 human genes involved in 14,102 interactions.With the inclusion of siRNA interactions we introduce a redesigned web interface to enhance viewing, filtering and downloading of the combined data set.

View Article: PubMed Central - PubMed

Affiliation: National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, 8600 Rockville Pike, Bethesda, MD 20894, USA.

Show MeSH
Related in: MedlinePlus