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Resource:Biomolecular Object Network Databank

Name: Resource:Biomolecular Object Network Databank
Description:

BOND, which requires registration of a free account, is a resource used to perform cross-database searches of available sequence, interaction, complex and pathway information. BOND integrates a range of component databases including GenBank and BIND, the Biomolecular Interaction Network Database. BOND contains 70+ million biological sequences, 33,000 structures, 38,000 GO terms, and over 200,000 human curated interactions contained in BIND, and is open access.
BOND serves the interests of the developing global interactome effort encompassing the genomic, proteomic and metabolomic research communities. BOND is the first open access search resource to integrate sequence and interaction information. BOND integrates BLAST functionality, and contains a well-documented API.
Sequences BOND sequence information is derived from a biological sequence retrieval system inspired by Entrez, called SeqHound. The sequence and structure database content of SeqHound is derived from GenBank and is updated on a daily basis. Unlike GenBank, SeqHound goes further by allowing users to query via a well-established API.
BOND also stores annotation links for sequences, including links to Genome Ontology descriptions, MedLine abstracts, taxon identifiers, associated structures, redundant sequences, sequence neighbors, conserved domains, data base cross-references, Online Mendalian Inheritance in Man identifiers, LocusLink identifiers and complete genomes.
BIND on BOND The Biomolecular Interaction Network Database (BIND) is a collection of records documenting molecular interactions. BIND is a component database of BOND. The contents of BIND include high-throughput data submissions and hand-curated information gathered from the scientific literature.
BIND is an interaction database with three classifications for molecular associations: molecules that associate with each other to form interactions, molecular complexes that are formed from one or more interaction(s) and pathways that are defined by a specific sequence of two or more interactions.Interactions A BIND record represents an interaction between two or more objects that is believed to occur in a living organism. A biological object can be a protein, DNA, RNA, ligand, molecular complex, gene, photon or an unclassified biological entity. BIND records are created for interactions which have been shown experimentally and published in at least one peer-reviewed journal. A record also references any papers with experimental evidence that support or dispute the associated interaction.
Interactions are the basic units of BIND and can be linked together to form molecular complexes or pathways.
The BIND interaction viewer is a tool to visualize and analyze molecular interactions, complexes and pathways. The BIND interaction viewer uses Ontoglyphs to display information about a protein via attributes such as molecular function, biological process and sub-cellular localization. Ontoglyphs allow to graphically and interactively explore interaction networks, by visualizing interactions in the context of 34 functional, 25 binding specificity and 24 sub-cellular localization Ontoglyphs categories.

We will continue to provide an open access version of BOND, providing its subscribers with free, unlimited access to a core content set. But we are confident you will soon want to upgrade to BONDplus.
Other Name(s): BOND
Parent Organization: Thomson
Resource Type(s): database
Resource: Resource
URL: http://bond.unleashedinformatics.com/
*Id: nif-0000-00571
Keywords: gene, genes, genome, annotation, binding specificity, biological process, complex, dna, genomes, genomic, human, interaction, interactome, ligand, metabolomic, molecular, molecular complex, molecular function, molecular interaction, mouse, ontoglyphs, ontology terms, pathway, photon, protein, protein-protein interactions, proteomic, rna, sequence, structure, sub-cellular localization, taxonomy, unclassified biological entity
Link to OWL / RDF: Download this content as OWL/RDF

Curation status: Curated

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Contributors

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*Note: Neurolex imports many terms and their ids from existing community ontologies, e.g., the Gene Ontology. Neurolex, however, is a dynamic site and any content beyond the identifier should not be presumed to reflect the content or views of the source ontology. Users should consult with the authoritative source for each ontology for current information.

Facts about Resource:Biomolecular Object Network DatabankRDF feed
CurationStatuscurated  +
DefiningCitationhttp://bond.unleashedinformatics.com/  +
Definition

BOND, which requires registration
BOND, which requires registration of a free account, is a resource used to perform cross-database searches of available sequence, interaction, complex and pathway information. BOND integrates a range of component databases including GenBank and BIND, the Biomolecular Interaction Network Database. BOND contains 70+ million biological sequences, 33,000 structures, 38,000 GO terms, and over 200,000 human curated interactions contained in BIND, and is open access.
BOND serves the interests of the developing global interactome effort encompassing the genomic, proteomic and metabolomic research communities. BOND is the first open access search resource to integrate sequence and interaction information. BOND integrates BLAST functionality, and contains a well-documented API.
Sequences BOND sequence information is derived from a biological sequence retrieval system inspired by Entrez, called SeqHound. The sequence and structure database content of SeqHound is derived from GenBank and is updated on a daily basis. Unlike GenBank, SeqHound goes further by allowing users to query via a well-established API.
BOND also stores annotation links for sequences, including links to Genome Ontology descriptions, MedLine abstracts, taxon identifiers, associated structures, redundant sequences, sequence neighbors, conserved domains, data base cross-references, Online Mendalian Inheritance in Man identifiers, LocusLink identifiers and complete genomes.
BIND on BOND The Biomolecular Interaction Network Database (BIND) is a collection of records documenting molecular interactions. BIND is a component database of BOND. The contents of BIND include high-throughput data submissions and hand-curated information gathered from the scientific literature.
BIND is an interaction database with three classifications for molecular associations: molecules that associate with each other to form interactions, molecular complexes that are formed from one or more interaction(s) and pathways that are defined by a specific sequence of two or more interactions.Interactions A BIND record represents an interaction between two or more objects that is believed to occur in a living organism. A biological object can be a protein, DNA, RNA, ligand, molecular complex, gene, photon or an unclassified biological entity. BIND records are created for interactions which have been shown experimentally and published in at least one peer-reviewed journal. A record also references any papers with experimental evidence that support or dispute the associated interaction.
Interactions are the basic units of BIND and can be linked together to form molecular complexes or pathways.
The BIND interaction viewer is a tool to visualize and analyze molecular interactions, complexes and pathways. The BIND interaction viewer uses Ontoglyphs to display information about a protein via attributes such as molecular function, biological process and sub-cellular localization. Ontoglyphs allow to graphically and interactively explore interaction networks, by visualizing interactions in the context of 34 functional, 25 binding specificity and 24 sub-cellular localization Ontoglyphs categories.

We will continue to provide an open access version of BOND, providing its subscribers with free, unlimited access to a core content set. But we are confident you will soon want to upgrade to BONDplus.
ll soon want to upgrade to BONDplus.
Has default formThis property is a special property in this wiki.Resource  +
Has roleDatabase  +
Idnif-0000-00571  +
Is part ofThomson  +
KeywordsGene  +, Genes  +, Genome  +, Annotation  +, Binding specificity  +, Biological process  +, Complex  +, Dna  +, Genomes  +, Genomic  +, Human  +, Interaction  +, Interactome  +, Ligand  +, Metabolomic  +, Molecular  +, Molecular complex  +, Molecular function  +, Molecular interaction  +, Mouse  +, Ontoglyphs  +, Ontology terms  +, Pathway  +, Photon  +, Protein  +, Protein-protein interactions  +, Proteomic  +, Rna  +, Sequence  +, Structure  +, Sub-cellular localization  +, Taxonomy  +, and Unclassified biological entity  +
LabelResource:Biomolecular Object Network Databank  +
ModifiedDate13 October 2010  +
SuperCategoryResource  +
SynonymBOND  +