Abstract
Because influenza is a contagious respiratory illness that seriously threatens public health, accurate realtime prediction of influenza outbreaks may help save lives. In this paper, we use the Twitter data set and the United States Centers for Disease Control’s influenzalike illness (ILI) data set to predict a nearly realtime regional unweighted percentage ILI in the United States by use of an artificial neural network optimized by the improved artificial tree algorithm. The results show that the proposed method is an efficient approach to realtime prediction.
Introduction
Influenza can lead to serious illness, and influenzalike illnesses (ILI) can and do cause death. Therefore, it is crucial to public health that accurate realtime monitoring, early detection, and prediction of influenza outbreaks are provided. Disease detection and surveillance systems provide epidemiologic intelligence that help health officials to draw up preventive measures and assist clinic and hospital administrators in making optimal staffing and stocking decisions^{1}.
ILI is defined by the World Health Organization (WHO) as an acute respiratory infection with a measured fever higher than 38 °C, and cough, with onset within the previous 10 days^{2}. In a February 2016 document for outpatient illness surveillance, ILI is defined by the US Centers for Disease Control and Prevention (CDC) defined ILI as “ever (temperature of 100°F[37.8 °C] or greater) and a cough and/or a sore throat without a known cause other than influenza^{3}”.
Research has revealed that elevated risk of ILI is associated with factors such as active or passive smoking^{4,5,6,7,8}. For example, Wang et al.^{8} determine an association between passive smoking and ILI risk among housewives in North China, and have observed the effects of gene polymorphism related to the metabolism of smoking pollutants. Additionally, researchers are focusing on accurate realtime monitoring, early detection and prediction of influenza outbreaks such as using machine learning to predict the percentage ILI (%ILI)^{9}.
From the web site https://gis.cdc.gov/grasp/fluview/fluportaldashboard.html for 10 regions defined by Health and Human Services (HHS), we can see the weighted %ILI, the unweighted %ILI, the numbers of patients age 0–4, age 5–24, age 25–64 and age 65, ILI total and total patients. According to Santillana et al.^{9}, the CDC’s ILI data provides useful estimates of influenza activity with a known time lag of one to two weeks. This time lag has an influence on public health decisions. Thus many attempts have been made to provide realtime estimates of ILI in the US in an indirect manner^{10,11,12,13,14,15,16,17}. Google Flu Trends (GFT) used Internet searches to predict ILI in the US, making it the most widely used nontraditional prediction method in the past few years^{18}. But GFT was shut down in August 2015. This cessation left a need for novel and reliable methods to fill the gap. Santillana et al.^{9} proposed a realtime monitoring model for ILI, which they call ARES (“AutoRegressive Electronic health Record support vector machine”) to predict the CDC’s ILI for all geographic US regions including the nation and ten regions defined by HHS for the three flu seasons spanning 2012 to 2015. The results showed that ARES solved the prediction problem when compared with dynamic linear regression and a twoterm autoregressive model.
Many methods for predictions and classifications exist. Among them, there are machine learning^{9} for ILI, the artificial neural network^{19} for air quality index (AQI), PDE^{20} for predictionerror expansionbased reversible data hiding, finite element modeling^{21} for prediction of muscle activation for an eye movement, and a timespace discretization approach^{22} for bus travel time prediction.
Here, we focus on the neural network for prediction. The BP neural network (BPNN)^{23,24}, the selforganization map neural network^{25}, the radial basis function (RBF) neural network^{19}, the wavelet neural network^{26,27}, and the generalized radial basis function (GRBF) neural network^{28} are used to perform predictions and classifications. The randomness of the artificial networks’ initial parameters generalizes the predictions & classifications. Therefore, there are populationbased algorithms proposed to optimize these initial parameters. For example, in Qiu and Song^{24}, a genetic algorithm was used to optimize the initial parameters of a BP neural network for Japanese stock forecasting. In Lu et al.^{19} and in Lu et al.^{28}, particle swarm optimization algorithm was used to optimize the initial parameters of RBF for predicting AQI and GRBF neural networks for predicting the Chinese stock index, respectively.
A novel populationbased algorithm, the artificial tree (AT) algorithm^{29}, was proposed in 2017; it simulated tree growth and photosynthesis. In this paper, the AT algorithm is improved to optimize the initial parameters of BP neural network for predicting the unweighted %ILI by use of the CDC data set and the Twitter data set. We name our model IATBPNN, which stands for improved AT optimizing BP neural network.
Methods
The artificial tree algorithm
Inspired by the growth law of trees, in 2017 Li et al.^{29} proposed a kind of populationbased algorithm, the artificial tree (AT) algorithm, to perform thirty typical benchmark problems.
AT is similar to the common geometric features of the trees. AT algorithm is the optimization process of the problems, which is similar to the transfer process of the organic matter produced by the photosynthesis in the leaves from the leaves to the tree trunk through adjacent twigs and then through the thick branches. For the optimization problem, every solution is a Ddimension vector, which stands for the branch of AT and whose component denotes the branch position. Here, the i^{th} branch position is denoted as \({x}_{i}=({x}_{i1},{x}_{i2},\,\cdots ,\,{x}_{iD})\), \((i=\mathrm{1,}\,\mathrm{2,}\,\cdots ,\,SN)\), where SN is the number of branches and D is the number of the variables in the optimized problem. In AT algorithm, a better solution denotes a thicker branch and the best solution represents the tree trunk.
Generate the initial branches
The initial branches population is generated randomly by Eq. (1).
where \({x}_{ij}^{max}\) and \({x}_{ij}^{min}\) are the upper and lower boundaries for the j^{th} variable of the i^{th} branch, respectively, and rand(0, 1) is a random number between 0 and 1. For these branches, the corresponding solutions are calculated and then the optimal solution and the corresponding branch are regarded as the best solution f(x_{ best }) and the best branch x_{ best }.
Branch territory
According to the transfer of organic matter, it is key for AT algorithm to update the branch in some way. In AT, there are three branch update methods: crossover behavior, selfevolution behavior and random behavior. These updated theories depend on the branch territory. In AT algorithm, every branch owns its territory. And the total number of branches fall into a certain range within one territory. The territory of a thicker branch is obtained from Eq. (2).
where L is a constant, V_{ i }(x_{ i }) is the branch territory, and fit(x_{ i }) is the fitness value of the branch x_{ i }. The larger fit(x_{ i }) is, the better is the branch x_{ i }. For the minimum problem, the fit(x_{ i }) is calculated as follows:
where f(x_{ i }) is solution of the branch x_{ i }.
The Euclidean distance between the i^{th} branch x_{ i } and the j^{th} branch x_{ j } is denoted by Eq. (4).
The crowded tolerance Tol is proposed on the basis of the Euclidean distance. The territory of the branch x_{ i } can be expressed as Dis_{ ij } < V_{ i }(x_{ i }). Nb denotes the number of other branches within this territory. The relation of Nb and Tol is to determine whether the branch territory is crowded.
Selfevolution operator and crossover operator
For the branch x_{ i }, if Nb > Tol, it is crowded in the territory of x_{ i }. Thus the selfevolution is carried out to renew the branch as follows:
Otherwise, the crossover operator is performed to obtain the evolution of the branch. The new branch x_{ new } is merged with a randomly generated branch
within half of the branch territory and the current branch x_{ i } by stochastic linear interpolation as follows:
where rand(−1, 1) is a random number between −1 and 1.
Random operator
If the new branch generated by the crossover operator or the selfevolution operator is thicker than the old branch, the new branch replaces the old one. Otherwise, this new branch is abandoned and another new branch is generated by the crossover operator or the selfevolution operator. When the search number reaches the maximum search number Li(x_{ i }) = N × fit(x_{ i }) + N which is proportional to the fitness value fit(x_{ i }) and there is no new branch superior to the original one, where N is a constant, no better branch within this territory exists. Therefore, the original operator is replaced by the random operator and a new branch is randomly generated.
Update the optimal value
The solutions of each branch are compared with each other and the thickest branch in the round of cycle is obtained. For the minimum problem, \(f({x}_{i})(i=\mathrm{1,}\,\mathrm{2,}\,\cdots ,\,SN)\) is the solution of the branch x_{ i } and \(f({x}_{0}^{best})=\,{\min }(f({x}_{1}),\,f({x}_{2}),\,\cdots ,\,f({x}_{SN}))\) is recorded as the best solution in the current cycle where the corresponding branch \({x}_{0}^{best}\) is the best branch. The best solution is chosen from the previous and current solutions. If the best solution of the previous cycle is better, the solution and branch are replaced by the previous best ones. Otherwise, keep the current best solution.
The Improved Artificial Tree Algorithm
In artificial tree algorithm, a selfevolution operator is improved by means of the probability p. If p > 0.5, selfevolution operator is carried out by use of Eq. (5). Otherwise, let max(x_{ i }) denote the maximum component of branch x_{ i } and s denote the position of max(x_{ i }) in x_{ i }. If max(x_{ i }) is positive, the s^{th} component of x_{ i } is replaced by 1 − max(x_{ i }); otherwise, the s^{th} component of x_{ i } is replaced by 1 + max(x_{ i }). Thus the artificial tree algorithm is improved, abbreviated as IAT.
Experiments
Data
In this paper, we select two kinds of data sets for research on ILI prediction: the CDC data set and the Twitter data set. These two kinds consist of 55 weeks of data between the 41^{st} week in 2016 and the 45^{th} week in 2017 and are extracted according to the partition from CDC defined by HHS in USA.
The CDC data set
The CDC is a unit of the US Department of HHS, which provides reliable information for the protection of public health and safety, and makes healthy decision to improve citizens’ health through partnerships between the national health department and other organizations. The CDC data are regularly tracking reported visits to doctors according to the CDC official statistics on the trends of influenza or outbreaks such as SARS and Ebola. In the United States, the CDC records the number of people seeking medical attention with ILI symptoms. The agency’s web site https://gis.cdc.gov/grasp/fluview/fluportaldashboard.html provides both new and historical data, where CDC’s ILI is freely distributed and available through ILInet^{30}. From this web site, we can obtain the CDC’s data set on unweighted %ILI.
The Twitter data set
Twitter is a website of social network service and microblogging service based on US, and allows users to update messages up to 140 characters in length. Twitter can be used to track users’ casual remarks about their feelings when they would give them selfdiagnosis and could suffer from allergies, strep infections, or common colds as well as real cases of influenza. Wang et al.^{31} have built a prototype of flusurveillance system and developed a dynamic spatialtemporal PDE model that can predict flu prevalence in both spatial and temporal dimensions at both national and regional levels. It designs, implements, and evaluates a prototype system that automatically collects, analyzes and models geotagged flu tweets from realtime Twitter data streams. Specifically, flu tweets are extracted from realtime data streams and each tweet is tagged with geographical locations based on three information sources: (i) the geographical location in the profile of the user who tweeted the message, (ii) the physical location where the user sent the tweet and enabled their geographical location tracking in the Twitter App, and (iii) the geographical location mentioned in the content of the tweets. The Twitter data for this paper are collected from the system we built in Wang et al.^{31}.
To evaluate the algorithm for prediction, mean squared error (MSE)^{19}, relative mean squared error (RMSE)^{19}, and mean absolute percentage error (MAPE)^{19} are taken as the criteria standards, whose formulae are as follows:
where y_{ i } denotes the i^{th} actual value, and x_{ i } denotes the i^{th} predicted value.
Analysis
We set up a set of regional models for predicting the the unweighted percentage ILI (%ILI) in the United States. In these models, the independent variables used to predict the realtime estimates of ILI activity at week t include the (t − 3)^{th} week, the (t − 2)^{th} week and the (t − 1)^{th} week of the unweighted percentage ILI (%ILI) in the CDC’s data set, and the (t − 1)^{th} week of twitter data in the Twitter data set.
In this paper, AT algorithm and IAT algorithm are used to optimize the parameters of BP neural networks for prediction of %ILI, respectively, thus optimized models are obtained and written as ATBPNN and IATBPNN, respectively. For comparison purposed throughout the paper, we produced realtime estimates using three models: the basic BPNN, ATBPNN and IATBPNN. Therefore the inputs of all three models are composed of the (t − 3)^{th} week, the (t − 2)^{th} week and the (t − 1)^{th} week of %ILI in the CDC’s data set and the (t − 1)^{th} week of twitter data in the Twitter data set, and the outputs of all three models are the t^{th} week of % ILI in the CDC’s data set. Thus 52 4dimension samples are obtained, where 47 samples are taken to be trained and 5 samples are taken to be tested. The number of the neural nodes in the only hidden layer of BPNN part in every model is taken as 8 and then the structure of BPNN part is 481. Then, BPNN, ATBPNN and IATBPNN are performed for the above samples to predict the %ILI.
Results
First, we use the basic BP neural network for prediction to revise some missing data. We perform ten times and take the corresponding prediction of the missing data with the minimum MAPE. For example, The Twitter data for region 6 in Fig. 1 misses the 16th; 25th–26th; 46th–49th data. The red dots in Fig. 1 represent our predictions.
To predict the %ILI by use of the above 52 samples, we perform three models: BPNN, ATBPNN and IATBPNN. In BPNN and the BPNN part in ATBPNN and IATBPNN, the training maximum iterations is 10,000, the learning rate is 0.002, the momentum factor is 0.95, and the training goal is 0.00001. In addition, the size of population is 60; the AT algorithm and the IAT algorithm are all run 500 times. The structures of BPNN and the BPNN part in ATBPNN and IATBPNN are all 481, where 4, 8 and 1 denote the numbers of the nodes in the input layer, in the hidden layer and in the output layer, respectively. Fortyseven samples are trained and five samples are tested. From the experiments, we obtain Table 1 and Fig. 2.
Figure 2 shows the actual value and predicted values of three models on the trained samples and the tested samples of ten regions, where the green line perpendicular to the horizontal axis in every subfigure divides the whole plate into two parts: the left part is the actual outputs and the predicted outputs of the trained data on three models and the right part is the actual outputs and the predicted outputs of the tested data on three models. From Fig. 2, we can see that the outputs of these three models are close to the actual output in the trained state and there are differences between the predicted outputs of the three models and the actual outputs in the tested state.
Table 1 shows the MSE, RMSE, and MAPE on the tested samples of ten regions. The increasing orders of these three models on the MSE are IATBPNN, BPNN and ATBPNN on region 1 and region 6region 8, are BPNN, IATBPNN and ATBPNN only on region 2, and are IAIBPNN, ATBPNN and BPNN on region 3region 5 and region 9region 10. The increasing orders of these three models on the RMSE are IATBPNN, ATBPNN and BPNN on region 1, region 3region 5, region 7 and region 9region 10, are BPNN, IATBPNN and ATBPNN only on region 2, and are IATBPNN, BPNN and ATBPNN on region 6 and region 8. The increasing orders of these three models on the MAPE are IATBPNN, ATBPNN and BPNN on region 1, region 3region 5, region 7 and region 9region 10, and are IAIBPNN, BPNN and ATBPNN on region 2, region 6 and region 8. Therefore, according to these three errors, the proposed model, IATBPNN, is suitable for the prediction of influenzalike illness.
And also from Table 1, the average MSEs of BPNN, ATBPNN and IATBPNN across all ten regions in the tested period are 0.1542, 0.0953, and 0.0495, respectively; the average RMSEs of BPNN, ATBPNN and IATBPNN across all ten regions in the tested period are 0.1410, 0.0880, and 0.0381, respectively; the average MAPEs of BPNN, ATBPNN and IATBPNN across all ten regions in the tested period are 0.2397, 0.2034, and 0.1474, respectively. From Table 1, we also find the errors of three models on region 10 are the biggest. Therefore, the proposed model, IATBPNN, is superior to ATBPNN and BPNN for predicting CDC’s %ILI as defined by HHS.
Discussion
In this study, the Twitter data and the CDC’s data containing 55 weeks’ data between the 41^{st} week in 2016 and the 45^{th} week in 2017, in combination with an improved populationbased artificial tree algorithm optimizing the parameters of BP neural network are capable of accurately predicting realtime influenza activity at the regional scales in the US.
The ability of CDC’s data and Twitter data to predict CDC’s ILI regionally was established using three dynamicallytrained models: BPNN, ATBPNN and IATBPNN. The results show that incorporating CDC’s ILI and the Twitter’s influenza data, using a suitable improved artificial tree optimizing the parameters of BP neural network, can improve influenza predictions.
Table 1 shows that using IATBPNN reduced errors (MSE, RMSE, and MAPE) when compared to BPNN and ATBPNN. MSE across regions was generally improved, with the largest improvement in region 10 (from 0.8188 to 0.1569) and the mildest reduction taking place in region 1 (from 0.0254 to 0.0191). The average MSE generally improved, with the greatest performance in region 10 and the mildest reduction in region 6. RMSE across regions was generally improved, with the largest improvement in region 10 (from 0.8519 to 0.1387) and the mildest reduction taking place in region 6 (from 0.0121 to 0.0088). The average RMSE generally improved, with the greatest performance in region 10 and the mildest reduction in region 7. MAPE across regions was generally improved, with the largest improvement in region 10 (from 0.6532 to 0.3134) and the mildest reduction taking place in region 6 (from 0.0921 to 0.0872). The average MAPE generally improved, with the greatest performance in region 10 and the mildest reduction in region 1.
The only region on MSE and RMSE where the combination of historical CDC data and the Twitter data did not lead to improvements when compared to the BPNN was region 2, where MSE went from 0.0100 to 0.0163 and RMSE went from 0.0041 to 0.0051. For 9 out of the 10 regions, IATBPNN correctly estimated the realtime CDC’s %ILI.
In this study, the Twitter data have been revised by use of the basic BP neural network. And we would like to note that we used the Twitter data and the CDC data to train all of our models dynamically. BPNN and the BP parts of ATBPNN and IATBPNN have set the same parameters, and AT and IAT have the same setting. Our experience training near realtime influenza prediction models has shown us that the results of IATBPNN are in contrast to those of BPNN and ATBPNN. There are many discrepancies between the influenza estimates using IATBPNN and the actual CDC values, as captured by MSE, RMSE and MAPE, which are comparable to those using BPNN and ATBPNN. The experimental results showed that IATBPNN outperforms BPNN and ATBPNN. We hope that future work will use IATBPNN for predicting ILI at the state and city levels, in other countries as well as for other communicable diseases. Differently improved artificial tree algorithms will be proposed to optimize the parameters of artificial neural networks for many applications.
Conclusion
In this paper, we proposed an improved artificial tree (IAT) to optimize the parameters of BP neural network(IATBPNN) for predicting the CDC’s %ILI of USA. The inputs consist of the %ILI data derived from CDC of USA and Twitter data. Compared with ATBPNN and BPNN, IATBPNN is fit for solving this problem. The prediction of IATBPNN for %ILI are not only suitable for ten regions defined by HHS, but it also provides that the population algorithms can be applied and improved to optimize the parameters of artificial neural networks for solving the predictive problem. From Fig. 2 and Table 1, we also find that differences between the actual values and the predicted values exist. These may exist for four main reasons: revised Twitter data, generalization of the artificial neural network, the structure of BPNN and the part of BP neural network in ATBPNN and IATBPNN and one year’s time series. Continuing work is needed to improve the current algorithms or to propose the new algorithm to optimize the parameters of artificial neural networks for diminishing the generalization.
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Acknowledgements
This work was in part supported by the national Natural Science Foundation of China [grant number 61774137, 11571324]; Shanxi Natural Science Foundation [grant number 201701D22111439] and the US National Science Foundation (DMS1737861).
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Hongping Hu conceived the experiments, conducted the experiments and analyzed the results. Haiyan Wang and Feng Wang supervised the study and guided the analysis. Hongping Hu wrote the paper. Haiyan Wang and Feng Wang edited the paper. Daniel Langley and Adrian Avram collected the data sets and interpreted data. Maoxing Liu helped correct and review the manuscript, and gave some revised suggestions. All authors reviewed the manuscript.
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Hu, H., Wang, H., Wang, F. et al. Prediction of influenzalike illness based on the improved artificial tree algorithm and artificial neural network. Sci Rep 8, 4895 (2018). https://doi.org/10.1038/s41598018230751
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DOI: https://doi.org/10.1038/s41598018230751
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