Hageman, J A and Malosetti, M and van Eeuwijk, F A (2010) Two-mode clustering of genotype by trait and genotype by environment data. Euphytica, 183 (3). pp. 349-359.
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Abstract
In this paper, we demonstrate the use of two-mode clustering for genotype by trait and genotype by environment data. In contrast to two separate (one mode) clusterings on genotypes or traits/environments, two-mode clustering simultaneously produces homogeneous groups of genotypes and traits/environments. For two-mode clustering, we first scan all two-mode cluster solutions with all possible numbers of clusters using k-means. After deciding on the final numbers of clusters, we continue with a two-mode clustering algorithm based on a genetic algorithm. This ensures optimal solutions even for large data sets. We discuss the application of two-mode clustering to multiple trait data stemming from genomic research on tomatoes as well as an application to multi-environment data on barley.
| Item Type: | Article |
|---|---|
| Additional Information: | This project was (co)financed by the Centre for BioSystems Genomics (CBSG) which is part of the Netherlands Genomics Initiative/Netherlands Organisation for Scientific Research. |
| Uncontrolled Keywords: | Two-mode clustering, Biclustering, Genotype by trait interaction, Genotype by environment interaction, Metabolomics, Tomato, Barley, Two-mode k-means,Genetic algorithm |
| Author Affiliation: | Biometris-Applied Statistics, P.O. Box 100, 6700 AC Wageningen, The Netherlands |
| Subjects: | Crop Improvement |
| Divisions: | Other Crops |
| Depositing User: | Mr Siva Shankar |
| Date Deposited: | 27 Mar 2012 05:30 |
| Last Modified: | 27 Mar 2012 05:37 |
| Official URL: | http://dx.doi.org/10.1007/s10681-010-0236-6 |
| URI: | http://eprints.icrisat.ac.in/id/eprint/4213 |
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