DESCRIPTION

Maize (Zea mays) is one of the most important crops, acting as a source of food, animal feed, and renewable resources, so improvement of its yield and quality is a major objective. Molecular biology technologies and multiple omics have received increasing attention for maize breeding as they provide new and more efficient selection criteria. In our research, we combined four omics technologies, namely, genomics, proteomics, transcriptomics of maize, overcoming one technology may address the shortcomings of another help to improve the predicted accurate. A nonlinear combination method was used to construct networks for each data type and to integrate these networks into a single similarity network. Here, we integrated four different weighted networks into a fused network using the nodes that appeared at least one network. The fused network captures both shared and complementary information from the different data sources, offering insight into how informative each data type is for the observed similarity. After the fusion process, the orphan nodes were taken into the final fused network, some of which were proved to be TFs that play key roles in maize.

DATA

Type	Description	Download
Gene interaction network	We obtained the gene to gene interaction network from Walley et al’s research [1]. In the first two columns are the interact pairs of genes, and the last column is the score between them.
mRNA interaction network	We obtained the mRNA to mRNA interaction network from Walley et al’s research [1]. In the first two columns are the interact pairs of mRNAs, and the last column is the score between them.
Transcriptional regulation network	We obtained the regulator to target transcript interaction network from Walley et al’s research [1]. The first column is the regulator, the second column is target transcript and the last column is the score between them.
Protein interaction network	The protein to protein network comes from the STRING database because it contains the most known and potential interact associated among proteins.

CITATION:

1. Walley, J.W., et al., Integration of omic networks in a developmental atlas of maize. Science, 2016. 353(6301): p. 814-8.

The iterative process of integrating multi-omics weighted networks into a single network

Contact

Quan Zou

$Q{ZND1L8%Z)AQ_H)5O[MTDH$ zouquan@tju.edu.cn

School of Computer Science and Technology, Tianjin University

Xiangxiang Zeng

$Q{ZND1L8%Z)AQ_H)5O[MTDH$ xzeng@xmu.edu.cn

School of Information Science and Engineering, Xiamen University