title: Lynx: a knowledge base and an analytical workbench for integrative medicine.
abstract: Lynx (http://lynx.ci.uchicago.edu) is a web-based database and a knowledge extraction engine. It supports annotation and analysis of high-throughput experimental data and generation of weighted hypotheses regarding genes and molecular mechanisms contributing to human phenotypes or conditions of interest. Since the last release, the Lynx knowledge base (LynxKB) has been periodically updated with the latest versions of the existing databases and supplemented with additional information from public databases. These additions have enriched the data annotations provided by Lynx and improved the performance of Lynx analytical tools. Moreover, the Lynx analytical workbench has been supplemented with new tools for reconstruction of co-expression networks and feature-and-network-based prioritization of genetic factors and molecular mechanisms. These developments facilitate the extraction of meaningful knowledge from experimental data and LynxKB. The Service Oriented Architecture provides public access to LynxKB and its analytical tools via user-friendly web services and interfaces.
authors.affiliation: Department of Human Genetics, University of Chicago, 920 E. 58th Street, Chicago, IL 60637, USA Computation Institute, University of Chicago, 5735 S. Ellis Avenue, Chicago, IL 60637, USA sulakhe@uchicago.edu.
authors.forename: Dinanath
authors.initials: D
authors.lastname: Sulakhe
authors.affiliation: Department of Human Genetics, University of Chicago, 920 E. 58th Street, Chicago, IL 60637, USA Department of Computer Science, Illinois Institute of Technology, Chicago, IL 60616, USA.
authors.forename: Bingqing
authors.initials: B
authors.lastname: Xie
authors.affiliation: Department of Human Genetics, University of Chicago, 920 E. 58th Street, Chicago, IL 60637, USA.
authors.forename: Andrew
authors.initials: A
authors.lastname: Taylor
authors.affiliation: Department of Human Genetics, University of Chicago, 920 E. 58th Street, Chicago, IL 60637, USA.
authors.forename: Mark
authors.initials: M
authors.lastname: D'Souza
authors.affiliation: Department of Human Genetics, University of Chicago, 920 E. 58th Street, Chicago, IL 60637, USA.
authors.forename: Sandhya
authors.initials: S
authors.lastname: Balasubramanian
authors.affiliation: Toyota Technological Institute at Chicago, 6045 S. Kenwood Avenue, Chicago, IL 60637, USA.
authors.forename: Somaye
authors.initials: S
authors.lastname: Hashemifar
authors.affiliation: Department of Medicine, University of Chicago, 5841 S. Maryland Avenue, Chicago, IL 60637, USA.
authors.forename: Steven
authors.initials: S
authors.lastname: White
authors.affiliation: Computation Institute, University of Chicago, 5735 S. Ellis Avenue, Chicago, IL 60637, USA.
authors.forename: Utpal J
authors.initials: UJ
authors.lastname: Dave
authors.affiliation: Department of Computer Science, Illinois Institute of Technology, Chicago, IL 60616, USA.
authors.forename: Gady
authors.initials: G
authors.lastname: Agam
authors.affiliation: Toyota Technological Institute at Chicago, 6045 S. Kenwood Avenue, Chicago, IL 60637, USA.
authors.forename: Jinbo
authors.initials: J
authors.lastname: Xu
authors.affiliation: Department of Human Genetics, University of Chicago, 920 E. 58th Street, Chicago, IL 60637, USA Toyota Technological Institute at Chicago, 6045 S. Kenwood Avenue, Chicago, IL 60637, USA.
authors.forename: Sheng
authors.initials: S
authors.lastname: Wang
authors.affiliation: Department of Human Genetics, University of Chicago, 920 E. 58th Street, Chicago, IL 60637, USA Computation Institute, University of Chicago, 5735 S. Ellis Avenue, Chicago, IL 60637, USA.
authors.forename: T Conrad
authors.initials: TC
authors.lastname: Gilliam
authors.affiliation: Department of Human Genetics, University of Chicago, 920 E. 58th Street, Chicago, IL 60637, USA Computation Institute, University of Chicago, 5735 S. Ellis Avenue, Chicago, IL 60637, USA maltsev@uchicago.edu.
authors.forename: Natalia
authors.initials: N
authors.lastname: Maltsev
mesh_terms: D057225:Data Mining; D030541:Databases, Genetic; D053263:Gene Regulatory Networks; D005796:Genes; D006801:Humans; D055048:Integrative Medicine; D051188:Knowledge Bases; D058977:Molecular Sequence Annotation; D010641:Phenotype