Gene locations may contribute to predicting gene regulatory relationships

作     者：Jun MENG Wen-yuan XU Xiao CHEN Tao LIN Xiao-yu DENG 

作者机构：Department of System Science and Engineering School of Electrical Engineering Zhejiang University Laboratory of Machine Learning and Optimization école Polytechnique Fédérale de Lausanne (EPFL) 

出 版 物：《Journal of Zhejiang University-Science B(Biomedicine & Biotechnology)》 (浙江大学学报（英文版）B辑（生物医学与生物技术）)

年 卷 期：2018年第19卷第1期

页      面：25-37页

核心收录：

学科分类：12[管理学] 1201[管理学-管理科学与工程(可授管理学、工学学位)] 081104[工学-模式识别与智能系统] 08[工学] 0835[工学-软件工程] 0811[工学-控制科学与工程] 0812[工学-计算机科学与技术（可授工学、理学学位）] 

基　　金：Project supported by the National Natural Science Foundation of China(Nos.60574079 30872957 and 30572129) 

主　　题：Prediction Gene regulatory relationships Order of gene location Spatio-temporal neighborhood method Zebrafish cardiogenesis 

摘      要：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.