Using Data Mining Technology to Carry Out Bioinformatics Study for Human Rabies in Hubei Province of China

doi:10.13523/j.cb.2010040

China Biotechnology

2021, Vol. 41

Issue (2/3): 14-29 DOI: 10.13523/j.cb.2010040

Using Data Mining Technology to Carry Out Bioinformatics Study for Human Rabies in Hubei Province of China

ZHANG Qiao-zhen¹,WU Wen-ting¹,LI Zi-xuan¹,ZHAO Xin-bo¹,HU Bing²,LIU Cong²,SUI Zheng-wei³,LIU Hong-tu⁴,ZHANG Le^1,^5,^**(

)

1 College of Computer Science, Sichuan University, Chengdu 610065, China
2 Hubei Provincial Center for Disease Control and Prevention, Wuhan 430079, China
3 China Center for Resources Satellite Data and Application, Beijing 100094, China
4 National Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Beijing 102206, China
5 Biomedical Big Data Center, West China Hospital, Sichuan University, Chengdu 610065, China

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Abstract

It is well known that the fatality rate of rabies, an acute zoonotic disease, is nearly 100%. As one of the high incidence areas in central China, investigating rabies epidemic in Hubei province not only can understand the current risk of Chinese rabies epidemic, but also can provide effective suggestions for local and national rabies prevention and control. Firstly, descriptive analysis turned out that the rabies cases of Hubei province are decreasing, but the exposed cases of rabies are increasing. Especially, rabies cases in the central and western regions of Hubei are slightly greater than the east, while rabies cases for men is significantly greater than for women. Moreover, the rabies cases of middle-aged and elderly people infected are greater than the young. Secondly, time series analysis for rabies cases and exposed cases to rabies confirmed that both time series have seasonal periodicity and are correlated with each other. The predictive rabies model shows that the rabies cases will be stable, whereas the exposed cases of rabies will increase in the next three years. Thirdly, panel regression showed that the rabies cases in Hubei province are comprehensively affected by population, GDP, air temperature and precipitation, and test results demonstrated statistically significant differences between low/high elevations and slopes. Finally, the limitations and the future research direction were further discussed.

Key words： Rabies Descriptive analysis Time series analysis Panel regression analysis Significance test

Received: 29 October 2020 Published: 08 April 2021

ZTFLH:

Q143

Corresponding Authors: Le ZHANG E-mail: zhangle06@scu.edu.cn

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	Qiao-zhen ZHANG
	Wen-ting WU
	Zi-xuan LI
	Xin-bo ZHAO
	Bing HU
	Cong LIU
	Zheng-wei SUI
	Hong-tu LIU
	Le ZHANG

Cite this article:

ZHANG Qiao-zhen,WU Wen-ting,LI Zi-xuan,ZHAO Xin-bo,HU Bing,LIU Cong,SUI Zheng-wei,LIU Hong-tu,ZHANG Le. Using Data Mining Technology to Carry Out Bioinformatics Study for Human Rabies in Hubei Province of China. China Biotechnology, 2021, 41(2/3): 14-29.

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https://manu60.magtech.com.cn/biotech/10.13523/j.cb.2010040 OR https://manu60.magtech.com.cn/biotech/Y2021/V41/I2/3/14

Table 1 Related data sets for rabies

Table 2 Key terms for rabies

Fig.1 Workflow

Fig.2 Trend and seasonality for rabies cases and exposed cases of rabies in Hubei province

Fig.3 Spatiotemporal distribution for rabies cases in Hubei province from 2004 to 2011

Fig. 4 Spatiotemporal distribution for rabies cases in Hubei province from 2012 to 2018

Fig.5 Population distribution for rabies cases in Hubei province

Fig.6 Workflow of the time series analysis module

Fig.7 The spectral density of the time series (a) The spectral density of the time series data for rabies cases (b) The spectral density of the time series data for exposed cases of rabies

Fig.8 Cross-correlation function of the time series data for rabies cases and exposed cases of rabies

Table 3 Time series models for rabies cases and exposed cases of rabies

Fig.9 Prediction of the rabies and exposed cases (a) Prediction of rabies cases (b) Prediction of exposed cases of rabies The black and blue line is the original and predicted time series, respectively. The dark and light gray areas represent the 80% and 95% confidence intervals, respectively

Table 4 Panel regression with random effects

Table 5 Variance inflation factor for each independent variable

Fig.10 Q-Q plot (a) Low altitude group (b) High altitude group (c) Low slope group (d) High slope group (e) Low vegetation coverage group (f) High vegetation coverage group

Table 6 Homogeneity of variance test and corrected t-test for each comparison group


[1]	Chen J, Zou L, Jin Z, et al. Modeling the geographic spread of rabies in China. PLoS Neglected Tropical Diseases, 2015,9(5):e0003772. doi: 10.1371/journal.pntd.0003772 pmid: 26020234

[2]	Ruan S G. Modeling the transmission dynamics and control of rabies in China. Mathematical Biosciences, 2017,286:65-93. doi: 10.1016/j.mbs.2017.02.005 pmid: 28188732

[3]	WHO. WHO expert consultation on rabies. Second report. World Health Organ Tech Rep Ser, 2013,982:1-139.

[4]	Baghi H B, Bazmani A, Aghazadeh M. The fight against rabies: the Middle East needs to step up its game. The Lancet, 2016,388(10054):1880.

[5]	Guo D, Yin W, Yu H, et al. The role of socioeconomic and climatic factors in the spatio-temporal variation of human rabies in China. BMC Infectious Diseases, 2018,18(1):526. doi: 10.1186/s12879-018-3427-8 pmid: 30348094

[6]	Zhou H, Vong S, Liu K, et al. Human rabies in China, 1960-2014: a descriptive epidemiological study. PLoS Neglected Tropical Diseases, 2016,10(8):e0004874. doi: 10.1371/journal.pntd.0004874 pmid: 27500957

[7]	Montgomery J P, Zhang Y, Wells E V, et al. Human rabies in Tianjin, China. Journal of Public Health, 2012,34(4):505-511. pmid: 22653884

[8]	Li G W, Chen Q G, Qu Z Y, et al. Epidemiological characteristics of human rabies in Henan province in China from 2005 to 2013. Journal of Venomous Animals and Toxins Including Tropical Diseases, 2015,21:34.

[9]	Ren J P, Gong Z Y, Chen E F, et al. Human rabies in Zhejiang province, China. International Journal of Infectious Diseases, 2015,38:77-82. doi: 10.1016/j.ijid.2015.07.013 pmid: 26216767

[10]	Qi L, Su K, Shen T, et al. Epidemiological characteristics and post-exposure prophylaxis of human rabies in Chongqing, China, 2007-2016. BMC Infectious Diseases, 2018,18(1):1-7. doi: 10.1186/s12879-017-2892-9 pmid: 29291713

[11]	沈洪兵, 齐秀英. 流行病学.第八版. 北京:人民卫生出版社, 2013: 37.

[11]	Shen H B, Qi X Y. Epidemiology.8th ed. Beijing: People’s Medical Publishing House, 2013: 37.

[12]	Song M, Tang Q, Wang D M, et al. Epidemiological investigations of human rabies in China. Bmc Infectious Diseases, 2009,9:210. doi: 10.1186/1471-2334-9-210 pmid: 20025742

[13]	Zhang J M, Zhang Z S, Deng Y Q, et al. Incidence of human rabies and characterization of rabies virus nucleoprotein gene in dogs in Fujian province, southeast China, 2002-2012. Bmc Infectious Diseases, 2017,17(1):1-8. pmid: 28049444

[14]	Yao H W, Yang Y, Liu K, et al. The spatiotemporal expansion of human rabies and its probable explanation in mainland China, 2004-2013. PLoS Neglected Tropical Diseases, 2015,9(2):e0003502.

[15]	Yan Q, Guo D, Cui W, et al. How to use open source data to assess infection disease risk: a framework and applications//IEEE, 2015 23rd International Conference on Geoinformatics. Wuhan: IEEE, 2015: 1-5.

[16]	王军. 狂犬病暴露预防处置工作规范(2009年版). 中国工作犬业, 2010, (2):60-61.

[16]	Wang J. Guidelines for prevention and treatment of rabies exposure(2009 edition). China Working Dog, 2010,(2):60-61.

[17]	朱建达. 小城镇空间形态发展规律:未来规划设计的新理念、新方法. 南京: 东南大学出版社, 2013: 228.

[17]	Zhu J D. Development law of small town spatial formnew concept and new method of future planning and design. Nanjing: Southeast University Press, 2013: 228.

[18]	杨胜天, 刘昌明, 杨志峰, 等. 南水北调西线调水工程区的自然生态环境评价. 地理学报, 2002,57(1):11-18.

[18]	Yang S T, Liu C M, Yang Z F, et al. Natural eco-environmental evaluation of West route area of interbasin water transfer project. Acta Geographica Sinica, 2002,57(1):11-18.

[19]	姜庆五, 陈启明, 周艺彪. 流行病学模型. 上海: 复旦大学出版社, 2012: 399-401.

[19]	Jiang Q W, Chen Q M, Zhou Y B. Epidemiological models. Shanghai:Fudan University Press, 2012: 399-401.

[20]	Han J, Kamber M. Data mining:concepts and techniques. 2nd ed. Beijing: China Machine Press, 2006: 490-512.

[21]	Nobre F F, Monteiro A B S, Telles P R , et al. Dynamic linear model and SARIMA: a comparison of their forecasting performance in epidemiology. Statistics in Medicine, 2001,20:3051-3069. doi: 10.1002/sim.963 pmid: 11590632

[22]	白仲林. 面板数据的计量经济分析. 天津: 南开大学出版社, 2008: 11-14.

[22]	Bai Z L. Econometric analysis of panel data. Tianjin:Nankai University Press, 2008: 11-14.

[23]	刘安芳, 伍莲. 生物统计学. 重庆:西南师范大学出版社, 2013: 84-89.

[23]	Liu A F, Wu L. Biostatistics. Chongqing: Southwest China Normal University Press, 2013: 84-89.

[24]	阿德勒. R语言核心技术手册. 第二版. 刘思喆,李舰, 陈钢, 等译. 北京:电子工业出版社, 2014.

[24]	Adler J. R in a nutshell. 2nd ed. Liu S Z,Li J, Chen G, et al. Beijing: Publishing House of Electronics Industry, 2014.

[25]	牟乃夏, 刘文宝, 王海银, 等. ArcGIS 10地理信息系统教程: 从初学到精通. 北京:测绘出版社, 2012.

[25]	Mu N X, Liu W B, Wang H Y, et al. ArcGIS 10 geographic information system course:from beginning to mastering. Beijing: Surveying and Mapping Press, 2012.

[26]	杨克诚. GIS软件实验指导书: 基于ArcGIS Desktop. 昆明: 云南大学出版社, 2009.

[26]	Yang K C. GIS software experimental instructions based on ArcGIS Desktop. Kunming:Yunnan University Press, 2009.

[27]	李苗苗. 植被覆盖度的遥感估算方法研究. 北京: 中国科学院遥感应用研究所, 2003.

[27]	Li M M. The method of vegetation fraction estimation by remote sensing. Beijing: Institute of Remote Sensing Applications, Chinese Academy of Sciences, 2003.

[28]	陈建军, 于志强, 朱昀. 数据可视化技术及其应用. 红外与激光工程, 2001,30(5):339-342.

[28]	Chen J J, Yu Z Q, Zhu Y. Data visualization and its applications. Infrared and Laser Engineering, 2001,30(5):339-342.

[29]	Paula M L, Beatriz V M M, Claudia T C, et al. Time series analysis of dengue incidence in Rio de Janeiro, Brazil. American Journal of Tropical Medicine & Hygiene, 2008,79(6):933-939.

[30]	Martinez, Zangiacomi E, Silva, et al. A SARIMA forecasting model to predict the number of cases of dengue in Campinas, State of S?o Paulo, Brazil. Revista Da Sociedade Brasileira De Medicina Tropical, 2011,44(4):436-440. doi: 10.1590/s0037-86822011000400007 pmid: 21860888

[31]	Noh J W, Kwon Y D, Park J, et al. Relationship between physical disability and depression by gender: a panel regression model. PLoS One, 2016,11(11):e0166238. doi: 10.1371/journal.pone.0166238 pmid: 27902709

[32]	曹玲玲, 何春艳. 沪港通能否有效实现AH股溢价回归:基于固定效应面板模型的分析. 金融理论探索, 2016, ( 1):41-45.

[32]	Cao L L, He C Y. Shanghai-Hong Kong stock connect can effectively realize AH premium return:based on the fixed effect panel analysis of the model. Exploration of Financial Theory, 2016, ( 1):41-45.

[33]	王福彦. 医学计量资料统计方法. 北京:人民军医出版社, 2011: 28-30.

[33]	Wang F Y. Statistical methods of medical metrology data. Beijing: People’s Military Medical Press, 2011: 28-30.

[34]	胡利琴. 金融时间序列分析实验教程. 武汉:武汉大学出版社, 2012: 35.

[34]	Hu L Q. Experimental course of financial time series analysis. Wuhan: Wuhan University Press, 2012: 35.

[35]	杜勇宏, 王健. 季节时间序列理论与应用. 天津:南开大学出版社, 2008: 45.

[35]	Du Y H, Wang J. Theory and application of seasonal time series. Tianjin:Nankai University Press, 2008:45.

[36]	闫中晓, 贾永飞. 基于谱分析的中国科技创新与经济增长周期波动关系. 科技管理研究, 2016,36(9):13-16,50.

[36]	Yan Z X, Jia Y F. Chinese scientific and technological innovation and economic growth cycle fluctuations based on spectral analysis. Science and Technology Management Research, 2016,36(9):13-16,50.

[37]	于俊年. 计量经济学. 第二版. 北京: 对外经济贸易大学出版社, 2007: 185.

[37]	Yu J N. Econometrics. 2nd ed. Beijing:University of International Business and Economics Press, 2007: 185.

[38]	梁静, 张文俊, 田津晶, 等. 2014年南昌市狂犬病暴露者流行病学特征分析. 医学动物防制, 2016,32(5):576-578,580.

[38]	Liang J, Zhang W J, Tian J J, et al. Rabies exposure population epidemiological characteristics analysis of Nanchang in 2014. Journal of Medical Pest Control, 2016,32(5):576-578,580.

[39]	郑东方, 施达, 郭凤芝. 金华市狂犬病暴露者流行病学特征分析. 预防医学, 2017,29(12):1243-1244,1247.

[39]	Zheng D F, Shi D, Guo F Z. Analysis of epidemiological characteristics of rabies exposure patients in Jinhua city. Preventive Medicine, 2017,29(12):1243-1244,1247.

[40]	Yu J, Xiao H, Yang W H, et al. The impact of anthropogenic and environmental factors on human rabies cases in China. Transboundary and Emerging Diseases, 2020,67(6):2544-2553. doi: 10.1111/tbed.13600 pmid: 32348020

[41]	潘铁骊, 张菲, 张守峰, 等. 几种理化因子对狂犬病病毒分离株感染力影响的再检测. 中国生物制品学杂志, 2011,24(1):45-47.

[41]	Pan T L, Zhang F, Zhang S F, et al. Restudy on effect of various physical and chemical factors on infectivity of a rabies virus isolate. Chinese Journal of Biologicals, 2011,24(1):45-47.

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