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190views Computer Vision» more  NAR 2011»
10 years 2 months ago
New tools and methods for direct programmatic access to the dbSNP relational database
Genome-wide association studies often incorporate information from public biological databases in order to provide a biological reference for interpreting the results. The dbSNP d...
Scott F. Saccone, Jiaxi Quan, Gaurang Mehta, Rapha...
131views more  BMCBI 2005»
10 years 12 months ago
Critical evaluation of the JDO API for the persistence and portability requirements of complex biological databases
Background: Complex biological database systems have become key computational tools used daily by scientists and researchers. Many of these systems must be capable of executing on...
Marko Srdanovic, Ulf Schenk, Michael Schwieger, Fa...
165views more  BMCBI 2007»
10 years 12 months ago
Automatic reconstruction of a bacterial regulatory network using Natural Language Processing
Background: Manual curation of biological databases, an expensive and labor-intensive process, is essential for high quality integrated data. In this paper we report the implement...
Carlos Rodríguez Penagos, Heladia Salgado, ...
11 years 1 months ago
Mapping Biological XML DTDs Using Ontology
Several biological databases exist which use different formats for storing data. Further, each database has its own schema and a query interface. There exist no standard conversio...
Rana Hashmy
181views Bioinformatics» more  APBC 2006»
11 years 1 months ago
Analyzing Inconsistency Toward Enhancing Integration of Biological Molecular Databases
: The rapid growth of biological databases not only provides biologists with abundant data but also presents a big challenge in relation to the analysis of data. Many data analysis...
Yi-Ping Phoebe Chen, Qingfeng Chen
177views Algorithms» more  CIDR 2007»
11 years 1 months ago
bdbms - A Database Management System for Biological Data
Biologists are increasingly using databases for storing and managing their data. Biological databases typically consist of a mixture of raw data, metadata, sequences, annotations,...
Mohamed Y. Eltabakh, Mourad Ouzzani, Walid G. Aref
11 years 3 months ago
Link Discovery in Graphs Derived from Biological Databases
Public biological databases contain vast amounts of rich data that can also be used to create and evaluate new biological hypothesis. We propose a method for link discovery in biol...
Petteri Sevon, Lauri Eronen, Petteri Hintsanen, Ki...
11 years 3 months ago
A Distributed Agent System upon Semantic Web Technologies to Provide Biological Data
Bioinformaticians are accustomed to going through analysis steps, in which they employ several data sources, like protein sequence and protein interaction databases, to carry out t...
Farzad Kohantorabi, Gregory Butler, Christopher J....
86views Database» more  SSDBM 1999»
11 years 4 months ago
A Query System in a Biological Database
In this paper, we present a query system that has been implemented in a practical biological database - GPCRDB. Distinguishing features of this system include: smart query relaxat...
Dunren Che, Yangjun Chen, Karl Aberer
11 years 5 months ago
An Overlay-Network Approach for Distributed Access to SRS
SRS is a widely used system for integrating biological databases. Currently, SRS relies only on locally provided copies of these databases. In this paper we propose a mechanism th...
Thomas Fuhrmann, Andrea Schafferhans, Thure Etzol