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DiscoveryLink: A system for integrated access to life sciences data sources
2001
IBM Systems Journal
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We describe the DiscoveryLink offering, focusing on two key elements, the wrapper architecture and the query optimizer, and illustrate how it can be used to integrate the access to life sciences data from ...
IBM's DiscoveryLink is one such system, targeted to applications from the life sciences industry. ...
Discussion From the preceding pages, we hope it is clear that DiscoveryLink can play a useful role in integrating access to life science data. ...
doi:10.1147/sj.402.0489
fatcat:qx3a5lh5ebeornmns3viy2y3bu
BioDWH: A Data Warehouse Kit for Life Science Data Integration
2008
Journal of Integrative Bioinformatics
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SummaryThis paper presents a novel bioinformatics data warehouse software kit that integrates biological information from multiple public life science data sources into a local database management system ...
This open source software can be used as a general infrastructure for integrative bioinformatics research and development. ...
Acknowledgements This work is supported by Sixth Framework Programme Priority 1 Life Sciences, Genomics and Biotechnology for Health: "CardioWorkBench -Drug Design for Cardiovascular Diseases: Integration ...
doi:10.1515/jib-2008-93
fatcat:f7pd2hs37jbj7d2yg6fsaj5jpq
Technologies for integrating biological data
2002
Briefings in Bioinformatics
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We use the Kleisli system to illustrate the properties found in such a general data integration system. ...
The process of building a new database relevant to some field of study in biomedicine involves transforming, integrating, and cleansing multiple data sources, as well as adding new material and annotations ...
SRS and DiscoveryLink were claimed by their inventors as general data integration systems for biomedicine. ...
doi:10.1093/bib/3.4.389
pmid:12511067
fatcat:dwjbtbyytvc53oxhe5qn5rqolq
BioDWH: a data warehouse kit for life science data integration
2008
Journal of Integrative Bioinformatics
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This paper presents a novel bioinformatics data warehouse software kit that integrates biological information from multiple public life science data sources into a local database management system. ...
This open source software can be used as a general infrastructure for integrative bioinformatics research and development. ...
Acknowledgements This work is supported by Sixth Framework Programme Priority 1 Life Sciences, Genomics and Biotechnology for Health: "CardioWorkBench -Drug Design for Cardiovascular Diseases: Integration ...
doi:10.2390/biecoll-jib-2008-93
pmid:20134070
fatcat:6znf76ylf5ht7pbo3dxjpysz4u
VINEdb: a data warehouse for integration and interactive exploration of life science data
2007
Journal of Integrative Bioinformatics
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with and to explore integrated life science data. ...
Furthermore, the system is supported by a visualization component to allow interactive graphical exploration of the integrated data. ...
In this paper we introduce VINEdb, a data warehouse for integration and interactive exploration of life science data. ...
doi:10.1515/jib-2007-63
fatcat:kjjxvkl3ofb6hkcyae5izxrdjy
Recent trends in knowledge and data integration for the life sciences
2006
Expert systems
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The challenge for bioinformatics is to tackle the problem of fragmentation of knowledge by integrating the many sources of heterogeneous information into a coherent entity. ...
Such technologies are of critical importance to biology, medical science and in drug discovery. ...
Acknowledgements This work was supported by a Research Development Fellowship funded by HEFCE. ...
doi:10.1111/j.1468-0394.2006.00414.x
fatcat:qb5qruvuk5a2zngwnc5i6wq6tm
VINEdb: a data warehouse for integration and interactive exploration of life science data
2008
Journal of Integrative Bioinformatics
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Here we present VINEdb, a data warehouse developed to interact with and to explore integrated life science data. ...
Furthermore, the system is supported by a visualization component to allow interactive graphical exploration of the integrated data. ...
In this paper we introduce VINEdb, a data warehouse for integration and interactive exploration of life science data. ...
doi:10.2390/biecoll-jib-2007-63
dblp:journals/jib/HariharaputranTBH07
fatcat:lhysmhjc75hydeituotepr57aa
TECHNOLOGIES FOR BIOLOGICAL DATA INTEGRATION
[chapter]
2004
The Practical Bioinformatician
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arguably the most widely used database query and navigation system for the Life Science community. ...
DiscoveryLink DiscoveryLink ¿½½ is an IBM product and, in principle, it goes one step beyond SRS as a general data integration system for biomedical data. ...
doi:10.1142/9789812562340_0017
fatcat:24zwwoahhfffzd2dbyovjzzeqi
Biodiversity information retrieval across networked data sets
2010
ASLIB Proceedings
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The approach presented in this paper is important for scientists as findings in science are useful should be shared among the scientists for a better living. ...
To solve this, we present an approach to integrate data through wrapping of various datasets stored in relational databases located on networked platforms. ...
We also would like to thank Prof Mashkuri Yaacob, Dr Lai Weng Kin and Mr Jingyuan Luke of MIMOS Sdn Bhd, Malaysia for allowing us to use their facilities to test the system. ...
doi:10.1108/00012531011074744
fatcat:t4vet5kmhzenfmyeon5y7jguui
Combining applications and remote databases view in a common SQL distributed genomic database
2005
Data Science Journal
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High-throughput experimental methods produce masses of data, so that the whole of biology has changed from a data-light science into a data-driven science. ...
Our framework, GenoMEDIA provides two main middleware to help for this integration, Lydia and Antje. ...
In such system, the language used is SQL and a wrapper is used in order to access database. The general schema of using DiscoveryLink is as foolowing: 1. ...
doi:10.2481/dsj.4.244
fatcat:r2jetsz7ofgszf3bmga33cams4
Information Management for Genome Level Bioinformatics
2001
Very Large Data Bases Conference
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., K2/Kleisli and GUS: Experiments in integrated access to genomic data sources, IBM Systems Journal, 40(2), 512-531, 2001. Not much to see: SQL query ranges over tables from different databases. ...
OMG Life Sciences. I3C. ...
dblp:conf/vldb/PatonG01
fatcat:yh7mzvvc4zefrmzxiu55nuj6t4
Federating data with Information Integrator
2003
Briefings in Bioinformatics
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in combining data from disparate sources, and SQL access to non-SQL data, easing the task of automating data analysis. ...
Information Integrator is an extension to IBM's relational database DB2, which uses data federation to provide benefits to molecular biology researchers through two unique capabilities: increased flexibility ...
The third data federation extension to DB2 provided by Information Integrator is called 'Life Sciences Data Connect'. ...
doi:10.1093/bib/4.4.375
pmid:14725350
fatcat:23jgz3zojfalpjykhobhlk2yk4
Information technology to the rescue!
2001
Nature Biotechnology
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Other data-integration solutions allow users to connect to and view data sources through a single interface. ...
Life sciences researchers will also have to grapple with the problem of data arising from highly heterogeneous sources. ...
doi:10.1038/89420
pmid:11433250
fatcat:yhzrgwqjirhzrevjtsoxgibwlm
A system for knowledge management in bioinformatics
2002
Proceedings of the eleventh international conference on Information and knowledge management - CIKM '02
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We address this problem in a comprehensive system for knowledge management in bioinformatics called e2e. ...
it can use any data integration solution to retrieve data and return results corresponding to the semantic view. ...
A variety of approaches have been developed for integrated access to heterogeneous data sources in genomics. ...
doi:10.1145/584792.584905
dblp:conf/cikm/AdakBBKKKS02
fatcat:ueh36lhoeng6zpsvzqbayn56sq
Transparent mediation-based access to multiple yeast data sources using an ontology driven interface
2011
BMC Bioinformatics
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Conclusions: YeastMed is the first mediation-based system specific for integrating yeast data sources. ...
In this paper, we present our approach in developing this system which takes advantage of SB-KOM to perform the query transformation needed and a set of Data Services to reach the integrated data sources ...
This article has been published as part of BMC Bioinformatics Volume 13 Supplement 1, 2012: Semantic Web Applications and Tools for Life Sciences (SWAT4LS) 2010. ...
doi:10.1186/1471-2105-13-s1-s7
pmid:22372975
pmcid:PMC3471333
fatcat:k4s5yu2ivzabnikb3n6yzv3zr4
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