Gene locations may contribute to predicting gene regulatory relationships.

Jun Meng; Wen-yuan XU; Xiao Chen; Tao Lin; Xiao-yu Deng

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Gene locations may contribute to predicting gene regulatory relationships.

Author: Jun MENG ¹ ; Wen-Yuan XU ¹ ; Xiao CHEN ¹ ; Tao LIN ² ; Xiao-Yu DENG ¹
Author Information

1. Department of System Science and Engineering, School of Electrical Engineering, Zhejiang University, Hangzhou 310027, China.
2. Laboratory of Machine Learning and Optimization, École Polytechnique Fédérale de Lausanne (EPFL), Route Cantonale, 1015 Lausanne 999034, Switzerland.
Publication Type:Journal Article
Keywords: Prediction; Gene regulatory relationships; Order of gene location; Spatio-temporal neighborhood method; Zebrafish cardiogenesis
MeSH: Algorithms; Animals; Chromosome Mapping; Chromosomes; Gene Expression; Gene Regulatory Networks; Heart/physiology*; Zebrafish/genetics*
From: Journal of Zhejiang University. Science. B 2018;19(1):25-37
CountryChina
Language:English
Abstract: We propose that locations of genes on chromosomes can contribute to the prediction of gene regulatory relationships. We constructed a time-based gene regulatory network of zebrafish cardiogenesis on the basis of a spatio-temporal neighborhood method. Through the network, specific regulatory pathways and order of gene expression during zebrafish cardiogenesis were obtained. By comparing the order with locations of these genes on chromosomes, we discovered that there exists a reversal phenomenon between the order and order of gene locations. The discovery provides an inherent rule to instruct exploration of gene regulatory relationships. Specifically, the discovery can help to predict if regulatory relationships between genes exist and contribute to evaluating the correctness of discovered gene regulatory relationships.