MADMAX – Management and analysis database for multiple ~omics experiments

Lin Ke; Kools Harrie; de Groot Philip J.; Gavai Anand K.; Basnet Ram K.; Cheng Feng; Wu Jian; Wang Xiaowu; Lommen Arjen; Hooiveld Guido J. E. J.; Bonnema Guusje; Visser Richard G. F.; Muller Michael R.; Leunissen Jack A. M.

doi:10.1515/jib-2011-160

Journal of Integrative Bioinformatics (Jun 2011)

MADMAX – Management and analysis database for multiple ~omics experiments

Lin Ke,
Kools Harrie,
de Groot Philip J.,
Gavai Anand K.,
Basnet Ram K.,
Cheng Feng,
Wu Jian,
Wang Xiaowu,
Lommen Arjen,
Hooiveld Guido J. E. J.,
Bonnema Guusje,
Visser Richard G. F.,
Muller Michael R.,
Leunissen Jack A. M.

Affiliations

Lin Ke: Laboratory of Bioinformatics, P.O. Box 569, 6700 AN Wageningen, Netherlands Netherlands
Kools Harrie: RIKILT, P.O. Box 230, 6700 AE Wageningen, Netherlands
de Groot Philip J.: Nutrition, Metabolism and Genomics Group, P.O. Box 8129, 6700 AA Wageningen, Netherlands
Gavai Anand K.: Laboratory of Bioinformatics, P.O. Box 569, 6700 AN Wageningen, the Netherlands Netherlands
Basnet Ram K.: Laboratory of Plant Breeding, P.O. Box 386, 6700 AJ Wageningen, Netherlands
Cheng Feng: Institute of Vegetable and Flowers, Chinese Academy of Agricultural Sciences, 12 Zhongguancun South Street, Beijing, 100081, China
Wu Jian: Institute of Vegetable and Flowers, Chinese Academy of Agricultural Sciences, 12 Zhongguancun South Street, Beijing, 100081, China
Wang Xiaowu: Institute of Vegetable and Flowers, Chinese Academy of Agricultural Sciences, 12 Zhongguancun South Street, Beijing, 100081, China
Lommen Arjen: RIKILT, P.O. Box 230, 6700 AE Wageningen, Netherlands
Hooiveld Guido J. E. J.: Nutrition, Metabolism and Genomics Group, P.O. Box 8129, 6700 AA Wageningen, Netherlands
Bonnema Guusje: Laboratory of Plant Breeding, P.O. Box 386, 6700 AJ Wageningen, Netherlands
Visser Richard G. F.: Laboratory of Plant Breeding, P.O. Box 386, 6700 AJ Wageningen, Netherlands
Muller Michael R.: Nutrition, Metabolism and Genomics Group, P.O. Box 8129, 6700 AA Wageningen, Netherlands
Leunissen Jack A. M.: Laboratory of Bioinformatics, P.O. Box 569, 6700 AN Wageningen, the Netherlands Netherlands

DOI: https://doi.org/10.1515/jib-2011-160
Journal volume & issue: Vol. 8, no. 2
pp. 59 – 74

Abstract

Read online

The rapid increase of ~omics datasets generated by microarray, mass spectrometry and next generation sequencing technologies requires an integrated platform that can combine results from different ~omics datasets to provide novel insights in the understanding of biological systems. MADMAX is designed to provide a solution for storage and analysis of complex ~omics datasets. In addition, analysis results (such as lists of genes) can be merged to reveal candidate genes supported by all datasets. The system constitutes an ISA-Tab compliant LIMS part, which is linked to the different analysis pipelines. A pilot study of different type of ~omics data in Brassica rapa demonstrates the possible use of MADMAX. The web-based user interface provides easy access to data and analysis tools on top of the database.

Published in Journal of Integrative Bioinformatics

ISSN: 1613-4516 (Online)
Publisher: De Gruyter
Country of publisher: Germany
LCC subjects: Technology: Chemical technology: Biotechnology
Website: https://www.degruyter.com/view/j/jib

About the journal