URL: | http://biozon.org/ |
Full name: | |
Description: | Biozon integrates roughly 2 million protein sequences, 42 million DNA or RNA sequences, 32 000 protein structures, 150 000 interactions and more from sources such as GenBank, UniProt, Protein Data Bank (PDB) and BIND. |
Year founded: | 2006 |
Last update: | |
Version: | |
Accessibility: | |
Country/Region: | United States |
Data type: | |
Data object: |
NA
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Database category: | |
Major species: |
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University/Institution: | Cornell University |
Address: | Ithaca, NY, USA |
City: | Ithaca |
Province/State: | NY |
Country/Region: | United States |
Contact name (PI/Team): | Golan Yona |
Contact email (PI/Helpdesk): | golan@cs.cornell.edu |
BIOZON: a hub of heterogeneous biological data. [PMID: 16381854]
Biological entities are strongly related and mutually dependent on each other. Therefore, there is a growing need to corroborate and integrate data from different resources and aspects of biological systems in order to analyze them effectively. Biozon is a unified biological database that integrates heterogeneous data types such as proteins, structures, domain families, protein-protein interactions and cellular pathways, and establishes the relationships between them. All data are integrated on to a single graph schema centered around the non-redundant set of biological objects that are shared by each source. This integration results in a highly connected graph structure that provides a more complete picture of the known context of a given object that cannot be determined from any one source. Currently, Biozon integrates roughly 2 million protein sequences, 42 million DNA or RNA sequences, 32,000 protein structures, 150,000 interactions and more from sources such as GenBank, UniProt, Protein Data Bank (PDB) and BIND. Biozon augments source data with locally derived data such as 5 billion pairwise protein alignments and 8 million structural alignments. The user may form complex cross-type queries on the graph structure, add similarity relations to form fuzzy queries and rank the results based on analysis of the edge structure similar to Google PageRank, online at Biozon.org. |
BIOZON: a system for unification, management and analysis of heterogeneous biological data. [PMID: 16480510]
BACKGROUND: Integration of heterogeneous data types is a challenging problem, especially in biology, where the number of databases and data types increase rapidly. Amongst the problems that one has to face are integrity, consistency, redundancy, connectivity, expressiveness and updatability. |
Hubs of knowledge: using the functional link structure in Biozon to mine for biologically significant entities. [PMID: 16480496]
BACKGROUND: Existing biological databases support a variety of queries such as keyword or definition search. However, they do not provide any measure of relevance for the instances reported, and result sets are usually sorted arbitrarily. |