English
 
User Manual Privacy Policy Disclaimer Contact us
  Advanced SearchBrowse

Item

ITEM ACTIONSEXPORT
  DIPSBC--data integration platform for systems biology collaborations

Dreher, F., Kreitler, T., Hardt, C., Kamburov, A., Yildirimman, R., Schellander, K., et al. (2012). DIPSBC--data integration platform for systems biology collaborations. BMC Bioinformatics, 13: 13:85. doi:10.1186/1471-2105-13-85.

Item is

Basic

show hide
Item Permalink: http://hdl.handle.net/11858/00-001M-0000-000E-F038-F Version Permalink: http://hdl.handle.net/11858/00-001M-0000-000E-F03A-B
Genre: Journal Article

Files

show Files
hide Files
:
Dreher.pdf (Publisher version), 4MB
Name:
Dreher.pdf
Description:
-
Visibility:
Public
MIME-Type / Checksum:
application/pdf / [MD5]
Technical Metadata:
Copyright Date:
-
Copyright Info:
© 2012 Dreher et al.; licensee BioMed Central Ltd
License:
-

Locators

show

Creators

show
hide
 Creators:
Dreher, Felix1, Author              
Kreitler, Thomas, Author
Hardt, Christopher1, Author              
Kamburov, Atanas1, Author              
Yildirimman, Reha1, Author              
Schellander, Karl2, Author
Lehrach, Hans3, Author              
Lange, Bodo M. H.3, Author              
Herwig, Ralf1, Author              
Affiliations:
1Bioinformatics (Ralf Herwig), Dept. of Vertebrate Genomics (Head: Hans Lehrach), Max Planck Institute for Molecular Genetics, Max Planck Society, Berlin, Germany, ou_1479648              
2Institute of Animal Science, University of Bonn, Bonn, Germany, ou_persistent22              
3Dept. of Vertebrate Genomics (Head: Hans Lehrach), Max Planck Institute for Molecular Genetics, Max Planck Society, Berlin, Germany, ou_1433550              

Content

show
hide
Free keywords: -
 Abstract: BACKGROUND: Modern biomedical research is often organized in collaborations involving labs worldwide. In particular in systems biology, complex molecular systems are analyzed that require the generation and interpretation of heterogeneous data for their explanation, for example ranging from gene expression studies and mass spectrometry measurements to experimental techniques for detecting molecular interactions and functional assays. XML has become the most prominent format for representing and exchanging these data. However, besides the development of standards there is still a fundamental lack of data integration systems that are able to utilize these exchange formats, organize the data in an integrative way and link it with applications for data interpretation and analysis. RESULTS: We have developed DIPSBC, an interactive data integration platform supporting collaborative research projects, based on Foswiki, Solr/Lucene, and specific helper applications. We describe the main features of the implementation and highlight the performance of the system with several use cases. All components of the system are platform independent and open-source developments and thus can be easily adopted by researchers. An exemplary installation of the platform which also provides several helper applications and detailed instructions for system usage and setup is available at http://dipsbc.molgen.mpg.de. CONCLUSIONS: DIPSBC is a data integration platform for medium-scale collaboration projects that has been tested already within several research collaborations. Because of its modular design and the incorporation of XML data formats it is highly flexible and easy to use.

Details

show
hide
Language(s): eng - English
 Dates: 2012-05-08
 Publication Status: Published online
 Pages: -
 Publishing info: -
 Table of Contents: -
 Rev. Method: Peer
 Identifiers: DOI: 10.1186/1471-2105-13-85
 Degree: -

Event

show

Legal Case

show

Project information

show

Source 1

show
hide
Title: BMC Bioinformatics
Source Genre: Journal
 Creator(s):
Affiliations:
Publ. Info: BioMed Central
Pages: - Volume / Issue: 13 Sequence Number: 13:85 Start / End Page: - Identifier: ISSN: 1471-2105
CoNE: https://pure.mpg.de/cone/journals/resource/111000136905000