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BioSODA: An intuitive search function for bioinformatics databases

 

Complex bioinformatics databases hold enormous amounts of knowledge that can only be retrieved with technical know-how. The goal of this project is to develop an intuitive, Google-like search function designed to help identify new correlations in the stored data.

Portrait / project description (ongoing research project)

The project remit is comparable to translating one language into another. Continuing with this analogy, the languages used for retrieving bioinformatics data can be compared with Esperanto and Latin. With no or merely a poor command of these languages, only limited bioscientific findings can be obtained since communication with the system is laborious. The objective behind BioSODA (Search Over DAta Warehouse for Biology) is to convert intuitive search terms into complex search queries.

Background

Rapid advances in DNA sequencing are transforming biosciences into a highly data-intensive discipline. Vast quantities of bioinformatics data are stored in complex databases which are built on powerful technologies, but also demand a great deal of background information technology expertise when it comes to retrieval. New search technologies are needed to efficiently analyse dozens of bioinformatics databases.

Aim

The present project is developing novel Google-like search options that allow researchers to query databases intuitively and concentrate on scientific questions.

Relevance/application

BioSODA makes running queries in huge quantities of bioinformatics data an easier task. The program also makes search suggestions in order to display information that has not been expressly sought. We aim to achieve easier access to knowledge and thus gain faster insights into perhaps still unknown biological correlations.

Original title

Bio-SODA: Enabling Complex, Semantic Queries to Bioinformatics Databases through Intuitive Searching over Data

Project leaders

  • Prof. Dr. Kurt Stockinger, Zurich University of Applied Sciences, Winterthur
  • Dr. Maria Anisimova, Zurich University of Applied Sciences & SIB, Wädenswil
  • Dr. Heinz Stockinger, SIB Swiss Institute of Bioinformatics, Lausanne
  • Prof. Dr. Marc Robinson-Rechavi, Département d'Ecologie et d'Evolution, Faculté de Biologie et de Médecine, Université de Lausanne & SIB
  • Prof. Dr. Christophe Dessimoz, Département d'Ecologie et d'Evolution, Faculté de Biologie et de Médecine, Université de Lausanne & SIB

 

 

Further information on this content

 Contact

Prof. Dr. Kurt Stockinger Zurich University of Applied Sciences Obere Kirchgasse 2
P.O. Box
8401 Winterthur stog@zhaw.ch

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