Applications of machine learning techniques to predict filariasis using socio-economic factors.

Filariasis is one of the major public health concerns in India. Approximately 600 million people spread across 250 districts of India are at risk of filariasis. To predict this disease, a pilot scale study was carried out in 30 villages of Karimnagar district of Telangana from 2004 to 2007 to collect epidemiological and socio-economic data. The collected data are analysed by employing various machine learning techniques such as Naïve Bayes (NB), logistic model tree, probabilistic neural network, J48 (C4.5), classification and regression tree, JRip and gradient boosting machine. The performances of these algorithms are reported using sensitivity, specificity, accuracy and area under ROC curve (AUC). Among all employed classification methods, NB yielded the best AUC of 64% and was equally statistically significant with the rest of the classifiers. Similarly, the J48 algorithm generated 23 decision rules that help in developing an early warning system to implement better prevention and control efforts in the management of filariasis.

Lag effect of climatic variables on dengue burden in India.

Dengue is a widespread vector-borne disease believed to affect between 100 and 390 million people every year. The interaction between vector, host and pathogen is influenced by various climatic factors and the relationship between dengue and climatic conditions has been poorly explored in India. This study explores the relationship between El Niño Southern Oscillation (ENSO), the Indian Ocean Dipole (IOD) and dengue cases in India. Additionally, distributed lag non-linear model was used to assess the delayed effects of climatic factors on dengue cases. The weekly dengue cases reported by the Integrated Disease Surveillance Program (IDSP) over India during the period 2010-2017 were analysed. The study shows that dengue cases usually follow a seasonal pattern, with most cases reported in August and September. Both temperature and rainfall were positively associated with the number of dengue cases. The precipitation shows the higher transmission risk of dengue was observed between 8 and 15 weeks of lag. The highest relative risk (RR) of dengue was observed at 60 mm rainfall with a 12-week lag period when compared with 40 and 80 mm rainfall. The RR of dengue tends to increase with increasing mean temperature above 24 °C. The largest transmission risk of dengue was observed at 30 °C with a 0-3 weeks of lag. Similarly, the transmission risk increases more than twofold when the minimum temperature reaches 26 °C with a 2-week lag period. The dengue cases and El Niño were positively correlated with a 3-6 months lag period. The significant correlation observed between the IOD and dengue cases was shown for a 0-2 months lag period.

Influence of socioeconomic aspects on lymphatic filariasis: A case-control study in Andhra Pradesh, India.

BACKGROUND & OBJECTIVES: Lymphatic filariasis (LF) is a major public health problem in India. The objective of the study was to assess the impact of socioeconomic conditions on LF in Chittoor district of Andhra Pradesh, India. METHODS: A survey was carried out from 2004 to 2007 during which, an epidemiological and socioeconomic data were collected and analysed. The microfilaria (mf) positive samples were taken as cases and matched with control group by sex and age (1:1) for case-control study. Bivariate and multivariate logistic regression was used to identify the potential risk factors for filariasis. Using principal component analysis (PCA), a socioeconomic index was developed and the data/scores were classified into low, medium and high categories. RESULTS: In total 5,133 blood smears were collected, of which 77 samples were found positive for microfilaria (1.52%). Multivariate analysis showed that the risk of filariasis was higher in groups of people with income < ₹1000 per month [OR = 2.752 (95%CI, 0.435-17.429)]; ₹ 1000-3000 per month [3.079 (0.923-0.275)]; people living in tiled house structure [1.641 (0.534-5.048)], with kutcha (uncemented) drainage system [19.427 (2.985- 126.410)], respondents who did not implemented mosquito avoidance measures [1.737 (0.563-5.358)]; and in people who were not aware about prevention and control of filariasis [1.042 (0.368-2.956)]. PCA showed that respondents with low (41.6%) and medium (33.8%) socioeconomic status are more prone to filariasis (p=0.036). INTERPRETATION & CONCLUSION: The cross sectional study showed that the population with low and medium socioeconomic status are at higher risk of filariasis. The identified socioeconomic risk factors can be used as a guideline for improving the conditions for effective management of filariasis.

Weather integrated malaria prediction system using Bayesian structural time series model for northeast states of India.

Malaria is an endemic disease in India and targeted to eliminate by the year 2030. The present study is aimed at understanding the epidemiological patterns of malaria transmission dynamics in Assam and Arunachal Pradesh followed by the development of a malaria prediction model using monthly climate factors. A total of 144,055 cases in Assam during 2011-2018 and 42,970 cases in Arunachal Pradesh were reported during the 2011-2019 period observed, and Plasmodium falciparum (74.5%) was the most predominant parasite in Assam, whereas Plasmodium vivax (66%) in Arunachal Pradesh. Malaria transmission showed a strong seasonal variation where most of the cases were reported during the monsoon period (Assam, 51.9%, and Arunachal Pradesh, 53.6%). Similarly, the malaria incidence was highest in the male population in both states (Asam, 55.75%, and Arunachal Pradesh, 51.43%), and the disease risk is also higher among the > 15 years age group (Assam, 61.7%, and Arunachal Pradesh, 67.9%). To predict the malaria incidence, Bayesian structural time series (BSTS) and Seasonal Auto-Regressive Integrated Moving Average with eXogenous factors (SARIMAX) models were implemented. A statistically significant association between malaria cases and climate variables was observed. The most influencing climate factors are found to be maximum and mean temperature with a 6-month lag, and it showed a negative association with malaria incidence. The BSTS model has shown superior performance on the optimal auto-correlated dataset (OAD) which contains auto-correlated malaria cases, cross-correlated climate variables besides malaria cases in both Assam (RMSE, 0.106; MAE, 0.089; and SMAPE, 19.2%) and Arunachal Pradesh (RMSE, 0.128; MAE, 0.122; and SMAPE, 22.6%) than the SARIMAX model. The findings suggest that the predictive performance of the BSTS model is outperformed, and it may be helpful for ongoing intervention strategies by governmental and nongovernmental agencies in the northeast region to combat the disease effectively.

Temperature dependent transmission potential model for chikungunya in India.

Chikungunya is a major public health problem in tropical and subtropical countries of the world. During 2016, the National Capital Territory of Delhi experienced an epidemic caused by chikungunya virus with >12,000 cases. Similarly, other parts of India also reported a large number of chikungunya cases, highest incidence rate was observed during 2016 in comparison with last 10 years of epidemiological data. In the present study we exploited R0 mathematical model to understand the transmission risk of chikungunya virus which is transmitted by Aedes vectors. This mechanistic transmission model is climate driven and it predicts how the probability and transmission risk of chikungunya occurs in India. The gridded temperature data from 1948 to 2016 shows that the mean temperatures are gradually increasing in South India from 1982 to 2016 when compared with data of 1948-1981 time scale. During 1982-2016 period many states have reported gradual increase in risk of chikungunya transmission when compared with the 1948-1981 period. The highest transmission risk of chikungunya in India due to favourable ecoclimatic conditions, increasing temperature leads to low extrinsic incubation period, mortality rates and high biting rate were predicted for the year 2016. The epidemics in 2010 and 2016 are also strongly connected to El Nino conditions which favours transmission of chikungunya in India. The study shows that transmission of chikungunya occurs between 20 and 34 °C but the peak transmission occurs at 29 °C. The infections of chikungunya in India are due to availability of vectors and optimum temperature conditions influence chikungunya transmission faster in India. This climate based empirical model helps the public health authorities to assess the risk of chikungunya and one can implement necessary control measures before onset of disease outbreak.

Dengue burden in India: recent trends and importance of climatic parameters.

For the past ten years, the number of dengue cases has gradually increased in India. Dengue is driven by complex interactions among host, vector and virus that are influenced by climatic factors. In the present study, we focused on the extrinsic incubation period (EIP) and its variability in different climatic zones of India. The EIP was calculated by using daily and monthly mean temperatures for the states of Punjab, Haryana, Gujarat, Rajasthan and Kerala. Among the studied states, a faster/low EIP in Kerala (8-15 days at 30.8 and 23.4 °C) and a generally slower/high EIP in Punjab (5.6-96.5 days at 35 and 0 °C) were simulated with daily temperatures. EIPs were calculated for different seasons, and Kerala showed the lowest EIP during the monsoon period. In addition, a significant association between dengue cases and precipitation was also observed. The results suggest that temperature is important in virus development in different climatic regions and may be useful in understanding spatio-temporal variations in dengue risk. Climate-based disease forecasting models in India should be refined and tailored for different climatic zones, instead of use of a standard model.

Climate drivers on malaria transmission in Arunachal Pradesh, India.

The present study was conducted during the years 2006 to 2012 and provides information on prevalence of malaria and its regulation with effect to various climatic factors in East Siang district of Arunachal Pradesh, India. Correlation analysis, Principal Component Analysis and Hotelling's T² statistics models are adopted to understand the effect of weather variables on malaria transmission. The epidemiological study shows that the prevalence of malaria is mostly caused by the parasite Plasmodium vivax followed by Plasmodium falciparum. It is noted that, the intensity of malaria cases declined gradually from the year 2006 to 2012. The transmission of malaria observed was more during the rainy season, as compared to summer and winter seasons. Further, the data analysis study with Principal Component Analysis and Hotelling's T² statistic has revealed that the climatic variables such as temperature and rainfall are the most influencing factors for the high rate of malaria transmission in East Siang district of Arunachal Pradesh.

Malaria prevalence in Arunachal Pradesh--a northeastern state of India.

Malaria is endemic in Arunachal Pradesh, India. To understand seasonal prevalence and malaria transmission, a retrospective surveillance study was conducted from 1995 to 2012. Plasmodium vivax caused 80.8% and P. falciparum caused 17.7% of total malaria cases. It was observed that prevalence rates of P. vivax declined significantly (P < 0.001) from 1995 to 2012 but that P. falciparum remained constant during the study period (P = 0.57). The decrease in the prevalence of P. vivax cases may be because of effective implementation of vector and disease management programs. It is noted that there was a significant correlation between the number of P. falciparum malaria cases and rainfall (P < 0.06). These findings help us to understand the patterns of malaria epidemiology in Arunachal Pradesh and show that P. falciparum is circulating constantly and requires more effective control measures to combat it.

A cohort study of lymphatic filariasis on socio economic conditions in Andhra Pradesh, India.

BACKGROUND: To assess the impact of socioeconomic variables on lymphatic filariasis in endemic villages of Karimnagar district, Andhra Pradesh, India. METHODS: A pilot scale study was conducted in 30 villages of Karimnagar district from 2004 to 2007. These villages were selected based on previous reports from department of health, Government of Andhra Pradesh, epidemiology, entomology and socioeconomic survey was conducted as per protocol. Collected data were analysed statistically by Chi square test, Principal Component Analysis, Odds ratio, Bivariate, multivariate logistic regression analysis. RESULTS: Total of 5,394 blood samples collected and screened for microfilaria, out of which 199 were found to be positive (3.7%). The socioeconomic data of these respondents/participants were correlated with MF prevalence. The socioeconomic variables like educational status (Odds Ratio (OR) = 2.6, 95% Confidence Interval (CI) = 1.1-6.5), house structure (hut OR = 1.9, 95% CI = 1.2-3.1; tiled OR = 1.3, 95% CI = 0.8-2) and participation in mass drug administration program (OR = 1.8, 95% CI = 1.3-2.6) were found to be highly associated with the occurrence of filarial disease. The socioeconomic index was categorized into low (3.6%; OR-1.1, 95% CI: 0.7-1.5) medium (4.9%; OR-1.5, 95% CI = 1-2.1) and high (3.3%) in relation to percentage of filarial parasite prevalence. A significant difference was observed among these three groups while comparing the number of cases of filaria with the type of socioeconomic conditions of the respondents (P = 0.067). CONCLUSIONS: From this study it is inferred that age, education of family, type of house structure and awareness about the filarial disease directly influenced the disease prevalence. Beside annual mass drug administration program, such type of analysis should be undertaken by health officials to target a few socioeconomic factors to reduce the disease burden. Health education campaigns in the endemic villages and imparting of protection measures against mosquitoes using insecticide treated bed nets would substantially reduce the disease in these villages.

Filaria monitoring visualization system: a geographical information system-based application to manage lymphatic filariasis in Andhra Pradesh, India.

Among various public health diseases, filariasis constitutes a major public health problem in India, wherein an estimated 553.7 million people are at risk of infection. The aim of this article is to present a spatial mapping and analysis of filariasis data over a 3-year period (2004-2007) from Karimnagar, Chittoor, East and West Godavari districts of Andhra Pradesh, India. The data include epidemiological and entomological studies (i.e., infection rate, infectivity rate, mosquito per man hour, and microfilaria rate). These parameters were customized on Geographical Information System (GIS) platform and developed filaria monitoring visualization system (FMVS) for identifying the endemic/risk areas of filariasis among these four districts. GIS map for filariasis transmission from the study areas was created and stratified into different spatial entities like low, medium, and high risk zones. On the basis of the data and FMVS maps, it was demonstrated that filariasis remained unevenly distributed within the districts. Balancing the intervention coverage in different villages with overall mass drug administration and continued promotion of the proper use of control measures are necessary for further reduction of filarial cases in these districts.

Data base management system for lymphatic filariasis--a neglected tropical disease.

BACKGROUND: Researchers working in the area of Public Health are being confronted with large volumes of data on various aspects of entomology and epidemiology. To obtain the relevant information out of these data requires particular database management system. In this paper, we have described about the usages of our developed database on lymphatic filariasis. METHODS: This database application is developed using Model View Controller (MVC) architecture, with MySQL as database and a web based interface. We have collected and incorporated the data on filariasis in the database from Karimnagar, Chittoor, East and West Godavari districts of Andhra Pradesh, India. CONCLUSION: The importance of this database is to store the collected data, retrieve the information and produce various combinational reports on filarial aspects which in turn will help the public health officials to understand the burden of disease in a particular locality. This information is likely to have an imperative role on decision making for effective control of filarial disease and integrated vector management operations.