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Mol Biol Rep. 2016 Jul;43(7):677-85. doi: 10.1007/s11033-016-4001-3. Epub 2016 May 13.

Analysis of bHLH coding genes using gene co-expression network approach.

Author information

1
Biotechnology Division, CSIR-Central Institute of Medicinal and Aromatic Plants, Post Office CIMAP, Lucknow, India.
2
Biotechnology Division, CSIR-Central Institute of Medicinal and Aromatic Plants, Post Office CIMAP, Lucknow, India. ashoksharma@cimap.res.in.

Abstract

Network analysis provides a powerful framework for the interpretation of data. It uses novel reference network-based metrices for module evolution. These could be used to identify module of highly connected genes showing variation in co-expression network. In this study, a co-expression network-based approach was used for analyzing the genes from microarray data. Our approach consists of a simple but robust rank-based network construction. The publicly available gene expression data of Solanum tuberosum under cold and heat stresses were considered to create and analyze a gene co-expression network. The analysis provide highly co-expressed module of bHLH coding genes based on correlation values. Our approach was to analyze the variation of genes expression, according to the time period of stress through co-expression network approach. As the result, the seed genes were identified showing multiple connections with other genes in the same cluster. Seed genes were found to be vary in different time periods of stress. These analyzed seed genes may be utilized further as marker genes for developing the stress tolerant plant species.

KEYWORDS:

Abiotic stress; Biological network; Clustering; Gene co-expression; Microarray analysis; Seed gene; Solanum tuberosum

PMID:
27178572
DOI:
10.1007/s11033-016-4001-3
[Indexed for MEDLINE]

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