BioWarehouse statistics

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BioWarehouse specifications

Information


Unique identifier OMICS_03844
Name BioWarehouse
Software type Application/Script
Interface Graphical user interface
Restrictions to use None
Operating system Unix/Linux
Programming languages C, Java
Database management system MySQL
License Mozilla Public License version 2.0
Computer skills Medium
Version 4.7
Stability Stable
Maintained No

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Publication for BioWarehouse

BioWarehouse in publications

 (7)
PMCID: 4020792
PMID: 24826896
DOI: 10.1371/journal.pone.0097250

[…] sequence data in each of enzyme db, swissprot, trembl, biocyc proteins, biocyc reactions, and orenza. in march 2009 we performed a number of sql queries against bioinformatics databases using the biowarehouse biological database warehousing system . the objectives of the queries were to create a definitive list of all defined ec numbers and create a list of ec numbers with known associated […]

PMCID: 3471333
PMID: 22372975
DOI: 10.1186/1471-2105-13-S1-S7

[…] approach [] and federated/mediator-based (or virtual) approach []., the data warehousing approach is adopted by numerous biological integration systems like gus [], atlas [], biosql [], biomart [], biowarehouse [], and chado []. this approach uses a data warehouse repository that provides a single access point to a collection of data, obtained from a set of distributed, heterogeneous sources. […]

PMCID: 3059952
PMID: 21423387
DOI: 10.3389/fphys.2010.00147

[…] on the schemas of the individual data sources (reddy et al., ). the data transferred to central repository is collected, integrated, stored and made available for search and presentation. (e.g., biowarehouse, lee et al., ; atlas, shah et al., ). the distributed model includes federation and mediation approaches. in federation approach the data is left in the respective fully functional […]

PMCID: 2762072
PMID: 19828083
DOI: 10.1186/1471-2105-10-S12-S7

[…] • dwarf [], which integrates data on sequence, structure, and functional annotation for protein fold families. dwarf extracts data from public available resouces (e.g. genbank, expdb and dssp)., • biowarehouse [] is an open source toolkit for constructing bioinformatics database warehouses by integrating a set of different biological databases into a single physical dbms (mysql or oracle). […]

PMCID: 2222660
PMID: 18154664
DOI: 10.1186/1471-2105-8-487

[…] and, more recently, the iupac international chemical identifier (inchi). while identifiers are easily used to connect databases, such as done in the srs system [] or in meta database software like biowarehouse [], the sheer number of web resources makes it impossible integrate all resources. consequently, (bio)chemical search engines, such as chemspider [] and tools to harvest information […]


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BioWarehouse institution(s)
Bioinformatics Research Group, SRI International, Menlo Park, CA, USA; Computer Science Laboratory, SRI International, Menlo Park, CA, USA; Stanford Medical Informatics, Stanford University, Stanford, CA, USA
BioWarehouse funding source(s)
Supported by Defense Advanced Research Projects Agency contract F30602-01-C-0153 and by the Department of Energy under grant DE-FG03-01ER63219.

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