Ischemia episode detection in ECG using kernel density estimation, support vector machine and feature selection
Authors
Open AccessArticle
- First Online:
- Received:
- Accepted:
DOI: 10.1186/1475-925X-11-30
Abstract
Background
Myocardial ischemia can be developed into more serious diseases. Early Detection of the ischemic syndrome in electrocardiogram (ECG) more accurately and automatically can prevent it from developing into a catastrophic disease. To this end, we propose a new method, which employs wavelets and simple feature selection.
Methods
For training and testing, the European ST-T database is used, which is comprised of 367 ischemic ST episodes in 90 records. We first remove baseline wandering, and detect time positions of QRS complexes by a method based on the discrete wavelet transform. Next, for each heart beat, we extract three features which can be used for differentiating ST episodes from normal: 1) the area between QRS offset and T-peak points, 2) the normalized and signed sum from QRS offset to effective zero voltage point, and 3) the slope from QRS onset to offset point. We average the feature values for successive five beats to reduce effects of outliers. Finally we apply classifiers to those features.
Results
We evaluated the algorithm by kernel density estimation (KDE) and support vector machine (SVM) methods. Sensitivity and specificity for KDE were 0.939 and 0.912, respectively. The KDE classifier detects 349 ischemic ST episodes out of total 367 ST episodes. Sensitivity and specificity of SVM were 0.941 and 0.923, respectively. The SVM classifier detects 355 ischemic ST episodes.
Conclusions
We proposed a new method for detecting ischemia in ECG. It contains signal processing techniques of removing baseline wandering and detecting time positions of QRS complexes by discrete wavelet transform, and feature extraction from morphology of ECG waveforms explicitly. It was shown that the number of selected features were sufficient to discriminate ischemic ST episodes from the normal ones. We also showed how the proposed KDE classifier can automatically select kernel bandwidths, meaning that the algorithm does not require any numerical values of the parameters to be supplied in advance. In the case of the SVM classifier, one has to select a single parameter.
Keywords
Myocardial ischemia Discrete wavelet transform Kernel density estimation Support vector machine QRS complex detection ECG baseline wandering removalBackground
Coronary artery disease is one of the leading causes of death in modern world. This disease mainly results from atherosclerosis and thrombosis, and it manifests itself as coronary ischemic syndrome [1].
There are several approaches to detect ischemic ST deviations. Some researchers used the entropy. Rabbani et al. used the fact that signal perturbation of normal people is lower than the perturbation of ischemic patients. They computed entropy measure of wavelet subband of ECG signal, and classified the ECG by examining which signal exhibited a more chaotic perturbation [3]. Lemire et al. calculated signal entropy at various frequency levels. They computed the entropy in each wavelet scale [4]. Some used adaptive neuro-fuzzy inference system. Pang et al. used Karhunen-Loève transform to extract several feature values. They classified ECG signal by an adaptive neuro-fuzzy inference system [5]. Tonekabonipour et al. used multi-layer perceptron and radial basis function to detect ischemic episode. They classified ECG signals by adaptive neuro-fuzzy network [6]. There are many papers which used artificial neural network. Stamkopoulos et al. used nonlinear principal component analysis to analyze complex data. They classified ECG signal by radial basis function neural network [7]. Maglaveras et al. used neural network optimized with a backpropagation algorithm [8]. Afsar et al. used Karhunen-Loève transform to find feature values, and classified an input ECG by using a neural network [9]. Papaloukas et al. used artificial neural network which was trained by Bayesian regularization method [10]. There are papers studied some other approaches. Bulusu et al. determined morphological features of ECG, and classified the ECG data by support vector machine. Andreao et al. used hidden Markov models to analyze ECG segments. They detected ischemia episode by using median filter and linear interpolation [11]. Faganeli and Jager tried to distinguish ischemic ST episode and non-ischemic ST episode caused by heart rate change. To this end, they computed heart rate values, Mahanalobis distance of Karhunen-Loève transform coefficients and Legendre orthonormal polynomial coefficients [12]. Exarchos et al. used decision tree. They formed decision rules comprising specific thresholds, and developed a fuzzy model to classify ischemic ECG signals [13]. Garcia et al. considered root mean square of difference between the input signal and the average signal composed of first 100 beats. They adopted an adaptive amplitude threshold to classify ECG signal [14]. Murugan and Radhakrishnan used ant-miner algorithm to detect ischemic ECG beats. They calculated several feature values such as ST segment deviation from input ECG signal [15]. Bakhshipour et al. analyzed coefficients resulted from wavelet transform. They examined the relative quotient of the coefficients at each decomposition level of the wavelet transform [16].
We approached this problem by extracting feature values from a ECG waveform. We first found time positions of QRS complexes, and then determined values of the three features. We calculated the feature values for each heart beat, and averaged their values in five successive beats. After that, we classified them by the methods of kernel density estimation and support vector machine.
We showed techniques of removing baseline wandering and detecting time positions of QRS complexes by discrete wavelet transform. With these explicit methods of dealing with ECG, we could discriminate ischemic ST episode from normal ECG. We did not adopt implicit methods such as artificial neural networks or decision trees, because we considered it was important to utilize explicit features for processes of decision making. The artificial neural network has a kind of black box nature in its hidden layers [17], and a decision tree is apt to include several numerical thresholds [13].
Methods
Materials
We used the European ST-T database from Physionet. European ST-T database has 90 records which are two-channel and each two hours in duration [18, 19]. Each record in this database has a different number of ST episodes. Overall there are 367 ischemic ST episodes in the database. Sampling frequency of each ECG data is 250 Hz.
We excluded 5 records because these had some problems. The records e0133, e0155, e0509, and e0611 had no ischemic ST episodes. The record e0163 had so limited ST episode whose length was just 31 seconds.
Removing baseline wandering
The ST segments in ECG can be strongly affected by baseline wandering [20]. Main causes of the baseline wandering are respiration and electrode impedance change due to perspiration [20, 21]. The frequency content of the baseline wandering is usually in a range below 0.5 Hz [20, 21].
In each step, the coefficient sequence implies a band of frequencies. If the sampling frequency of a discrete ECG signal ecg(n) is x, we can determine a continuous and band-limited signal within frequency limits of $\left[0,\frac{x}{2}\right]$ by Nyquist sampling theorem [23]. Therefore if we have transformed the input signal ecg(n) into the approximation coefficient sequence h _{1}(n) and detail coefficient sequence g _{1}(n), then the frequency content of g _{1}(n) is from $\frac{x}{4}$ to $\frac{x}{2}$, and the frequency content of h _{1}(n) is below $\frac{x}{4}$. In this regard, if we have transformed the ecg(n) into the approximation coefficient sequence h _{ k }(n), and the detail coefficient sequences g _{ k }(n),g _{ k−1}(n),· · ·,g _{1}(n), the frequency contents of g _{ k }(n),g _{ k−1}(n),· · ·,g _{1}(n) become $\left[\frac{x}{{2}^{k+1}},\frac{x}{{2}^{k}}\right],\left[\frac{x}{{2}^{k}},\frac{x}{{2}^{k-1}}\right],\xb7\; \xb7\; \xb7\phantom{\rule{0.3em}{0ex}},\left[\frac{x}{{2}^{2}},\frac{x}{2}\right]$ respectively [24, 25].
To remove baseline wandering, we should choose appropriate wavelet scale. We follow argument similar to that presented by Arvinti et al. except that they used stationary wavelet transform instead of its discrete counterpart [26]. We remove signal components whose frequency content is less than 1/2 Hz [20, 21]. If we have transformed the ECG signal ecg(n) into coefficient sequences h _{ k }(n),g _{ k }(n),g _{ k−1}(n),· · ·,g _{1}(n), the frequency contents of h _{ k }(n) and g _{ k }(n) become $\left[0,\frac{x}{{2}^{k+1}}\right]$ and $\left[\frac{x}{{2}^{k+1}},\frac{x}{{2}^{k}}\right]$ respectively, where x is the sampling frequency. If we choose k as $\frac{x}{{2}^{k+1}}\le \frac{1}{2}$ $k=\u2308\underset{2}{log}x\u2309$, the frequency content of the approximation coefficient sequence h _{ k }(n) becomes less than 1/2 Hz. Thus, we assign zero sequence $\overrightarrow{0}\left(n\right)$ to all the detail coefficient sequences g _{ k }(n),g _{ k−1}(n),· · ·,g _{1}(n), and calculate inverse transform of ${h}_{k}\left(n\right),\overrightarrow{0}\left(n\right),\overrightarrow{0}\left(n\right),\xb7\; \xb7\; \xb7\phantom{\rule{0.3em}{0ex}},\overrightarrow{0}\left(n\right)$ to form the baseline(n) in the bottom of Figure 3(b). If we subtract baseline(n) from ecg(n), we obtain the flattened signal like the one shown in Figure 3(c).
If we select a wrong wavelet scale k to find coefficient sequences of ecg(n), we obtain disappointing results. The flattened signal in Figure 3(c) is obtained when k is $\u2308\underset{2}{log}250\u2309=8$, where 250 is the sampling frequency expressed in Hz. When select k=4 to use h _{4}(n),g _{4}(n),g _{3}(n),g _{2}(n),g _{1}(n), we obtain a plot in Figure 3(d). The middle waveform, baseline(n), resulted from the inverse discrete wavelet transform of ${h}_{4}\left(n\right),\overrightarrow{0}\left(n\right),\overrightarrow{0}\left(n\right),\overrightarrow{0}\left(n\right)\overrightarrow{0}\left(n\right)$. This middle waveform is too detailed, so the bottom waveform ecg(n)-baseline(n) was negatively affected. When we select k=12, see Figure 3(e), the bottom waveform was not different from the input waveform ecg(n).
We adopt a discrete wavelet transform to retain the details of the ECG waveform because filtering by some cut-off frequency can deteriorate the quality of the ECG waveforms [27].
Detecting QRS complexes
We have to select an appropriate wavelet scale to capture proper time positions of QRS complexes. We will deal with only the flattened ECG waveform ecg(n)-baseline(n) referred in the previous section. We will denote it as fecg(n).
After finding the locations of QRS complexes, we choose QRS onset and offset points in each QRS complex. We search QRS onset point in backward direction from a peak point in each QRS complex. We take the QRS onset point if the point is at the place of changing direction of rising and falling of fecg(n) twice. In the same way, we take the QRS offset point in forward direction from the peak point.
Algorithm 1 shows a process of removing baseline wandering and detecting QRS complexes.
Algorithm 1
A procedure to find time positions of QRS onset, peak and offset points. This procedure includes the method of removing baseline wandering in ECG. nBeats stands for the number of QRS peaks. It is the length of the sequences idx_QRS_Onset(n), idx_QRS_Peak(n) and idx_QRS_Offset(n). Input: Sampling_Hz, ecg(n)Output: idx_QRS_Onset(n), idx_QRS_Peak(n), idx_QRS_Offset(n)k← $\u2308\underset{2}{log}\text{Sampling\_Hz}\u2309$ Discrete wavelet transform (DWT) of ecg(n) into h _{ k }(n),g _{ k }(n),g _{ k−1}(n),· · ·,g _{1}(n)for i=1 to k do g _{ i }(n)← $\overrightarrow{0}\left(n\right)$ {// $\overrightarrow{0}\left(n\right)$ means zero sequence.} end for Inverse wavelet transform (IDWT) of h _{ k }(n),g _{ k }(n),g _{ k−1}(n),· · ·,g _{1}(n) into baseline(n) $\mathrm{fecg}\left(n\right)\leftarrow \mathrm{ecg}\left(n\right)-\mathrm{baseline}\left(n\right)$ DWT of fecg(n) into h _{ k }(n),g _{ k }(n),g _{ k−1}(n),· · ·,g _{1}(n)h _{ k }(n)← $\overrightarrow{0}\left(n\right)$ g _{ k }(n)← $\overrightarrow{0}\left(n\right)$ for i=1 to k−1do
${g}_{i}^{\u2033}$(n)←g _{ i }(n)
g _{ i }(n)← $\overrightarrow{0}\left(n\right)$
end for for i=1 to k−1do
g _{ i }(n)← ${g}_{i}^{\u2033}$(n)
IDWT of h _{ k }(n),g _{ k }(n),g _{ k−1}(n),· · ·,g _{1}(n) into pulse(n)
${\mathit{\text{score}}}_{i}\leftarrow \left|\sum _{l}\mathit{\text{fecg}}\left(l\right)\frac{\left|\mathit{\text{pulse}}\left(l\right)\right|}{\sum _{m}\left|\mathit{\text{pulse}}\left(m\right)\right|}\right|$
g _{ i }(n)← $\overrightarrow{0}\left(n\right)$
end for chosen_scale ← ${\text{argmax}}_{2\le i\le k-2}\left\{{\mathit{\text{score}}}_{i}-{\mathit{\text{score}}}_{i+1}\right\}$ ${g}_{\text{chosen\_scale}}\left(n\right)$← ${g}_{\text{chosen\_scale}}^{\u2033}\left(n\right)$ IDWT of h _{ k }(n),g _{ k }(n),g _{ k−1}(n),· · ·,g _{1}(n) into pulse(n) $\mathit{\text{needle}}\left(n\right)\leftarrow \left|\mathit{\text{fecg}}\left(n\right)\mathit{\text{pulse}}\left(n\right)\right|$ Make idx_QRS_Peak(n) by searching for local maxima of needle(n)for i=1 to nBeats do if $\mathit{\text{fecg}}\left(\text{idx\_QRS\_Peak}\left(i\right)\right)>0$ then
$j\leftarrow 1$
while $\mathit{\text{fecg}}\left(\text{idx\_QRS\_Peak}\left(i\right)-j\right)\le \mathit{\text{fecg}}\left(\text{idx\_QRS\_Peak}\left(i\right)-j+1\right)$ do
$j\leftarrow j+1$
end while
while $\mathit{\text{fecg}}\left(\text{idx\_QRS\_Peak}\left(i\right)-j\right)>\mathit{\text{fecg}}\left(\text{idx\_QRS\_Peak}\left(i\right)-j+1\right)$ do
$j\leftarrow j+1$
end while
idx_QRS_Onset(i)← idx_QRS_Peak(i)−j
$j\leftarrow 1$
while $\mathit{\text{fecg}}\left(\text{idx\_QRS\_Peak}\left(i\right)+j-1\right)\ge \mathit{\text{fecg}}\left(\text{idx\_QRS\_Peak}\left(i\right)+j\right)$ do
$j\leftarrow j+1$
end while
while $\mathit{\text{fecg}}\left(\text{idx\_QRS\_Peak}\left(i\right)+j-1\right)<\mathit{\text{fecg}}\left(\text{idx\_QRS\_Peak}\left(i\right)+j\right)$ do
$j\leftarrow j+1$
end while
idx_QRS_Offset(i)← idx_QRS_Peak(i) + j
else
· · ·{//When QRS complex protrudes downward, code is same with reversing directions of inequality signs.}
end if end for
Feature formation for classification problems
We deal with the flattened waveform, fecg(n), to obtain the values of the features. We take voltage level of QRS onset point as the reference from which we measure voltage deviation [2, 28]. We denote the mean value of electric potentials at QRS onset points as $\overline{\mathit{\text{fecg}}\left(\mathit{\text{QRS}}\phantom{\rule{2.22144pt}{0ex}}\text{onset}\right)}$. We consider this value as an effective zero voltage, so we measure voltage deviation from the $\overline{\mathit{\text{fecg}}\left(\mathit{\text{QRS}}\phantom{\rule{2.22144pt}{0ex}}\text{onset}\right)}$.
We calculate these three feature values for each heart beat. Then we average these values in five successive beats, and arrange the three mean values as $\left({\mathit{\text{feature}}}_{1},{\mathit{\text{feature}}}_{2},{\mathit{\text{feature}}}_{3}\right)$.
Algorithm 2 shows the pseudo-code of computing feature values.
Algorithm 2
A procedure to compute feature values. nBeats denotes the number of QRS peaks. It is the length of the sequences idx_QRS_Onset(n), idx_QRS_Peak(n) and idx_QRS_Offset(n). n _{ cl } is equal to nBeats/5. Input: fecg(n), idx_QRS_Onset(n), idx_QRS_Peak(n), idx_QRS_Offset(n)Output: $\left\{{\mathbf{x}}_{1}^{\left(\mathrm{cl}\right)},{\mathbf{x}}_{2}^{\left(\mathrm{cl}\right)},\xb7\; \xb7\; \xb7\phantom{\rule{0.3em}{0ex}},{\mathbf{x}}_{{n}_{\mathrm{cl}}}^{\left(\mathrm{cl}\right)}\right\}$ {//cl can be S (ST episode) or N (normal).} mean_idx_diff_{1}← $\left(\sum _{i=1}^{\mathit{\text{nBeats}}}\left(\text{idx\_QRS\_Peak}\left(i\right)-\text{idx\_QRS\_Onset}\left(i\right)\right)\right)/\mathit{\text{nBeats}}$mean_idx_diff_{2}← $\left(\sum _{i=1}^{\mathit{\text{nBeats}}}\left(\text{idx\_QRS\_Offset}\left(i\right)-\text{idx\_QRS\_Peak}\left(i\right)\right)\right)/\mathit{\text{nBeats}}$ {//mean_idx_diff_{1}and mean_idx_diff_{2}are truncated into integers.} $\overline{\mathit{\text{fecg}}\left(\mathit{\text{QRS}}\phantom{\rule{2.22144pt}{0ex}}\text{onset}\right)}$← $\left(\sum _{i=1}^{\mathit{\text{nBeats}}}\mathit{\text{fecg}}\left(\text{idx\_QRS\_Onset}\left(i\right)\right)\right)/\mathit{\text{nBeats}}$ for i=1 to nBeats do k← idx_QRS_Peak(i) + mean_idx_diff_{2} ${\mathit{\text{feature}}}_{1}\left(i\right)\leftarrow \sum _{j=k}^{T\phantom{\rule{2.22144pt}{0ex}}\text{peak}}\left|\mathit{\text{fecg}}\left(j\right)-\overline{\mathit{\text{fecg}}\left(\mathit{\text{QRS}}\phantom{\rule{2.22144pt}{0ex}}\text{onset}\right)}\right|$ ${\mathit{\text{feature}}}_{2}\left(i\right)\leftarrow \left(\sum _{j=k}^{F}\left(\mathit{\text{fecg}}\left(j\right)-\overline{\mathit{\text{fecg}}\left(\mathit{\text{QRS}}\phantom{\rule{2.22144pt}{0ex}}\text{onset}\right)}\right)\right)/\left|\mathit{\text{fecg}}\left(\text{idx\_QRS\_Peak}\left(i\right)\right)\right|$ m← idx_QRS_Peak(i)−mean_idx_diff_{1} ${\mathit{\text{feature}}}_{3}\left(i\right)\leftarrow \left|\frac{\mathit{\text{fecg}}\left(k\right)-\mathit{\text{fecg}}\left(m\right)}{k-m}\right|$ end for for i=1 to nBeats/5 ${\left[{\mathbf{x}}_{i}^{\left(\mathrm{cl}\right)}\right]}_{1}\leftarrow \frac{1}{5}\sum _{j=5i-4}^{5i}{\mathit{\text{feature}}}_{1}\left(j\right)$ ${\left[{\mathbf{x}}_{i}^{\left(\mathrm{cl}\right)}\right]}_{2}\leftarrow \frac{1}{5}\sum _{j=5i-4}^{5i}{\mathit{\text{feature}}}_{2}\left(j\right)$ ${\left[{\mathbf{x}}_{i}^{\left(\mathrm{cl}\right)}\right]}_{3}\leftarrow \frac{1}{5}\sum _{j=5i-4}^{5i}{\mathit{\text{feature}}}_{3}\left(j\right)$ end for
Classification by kernel density estimation
We classify a test point by examining posterior probabilities in which the test point belongs to two classes, normal or ischemic ST episode. We assume we have n _{ S } points $\left\{{\mathbf{x}}_{1}^{\left(S\right)},{\mathbf{x}}_{2}^{\left(S\right)},\xb7\; \xb7\; \xb7\phantom{\rule{0.3em}{0ex}},{\mathbf{x}}_{{n}_{S}}^{\left(S\right)}\right\}$, and n _{ N } points $\left\{{\mathbf{x}}_{1}^{\left(N\right)},{\mathbf{x}}_{2}^{\left(N\right)},\xb7\; \xb7\; \xb7\phantom{\rule{0.3em}{0ex}},{\mathbf{x}}_{{n}_{N}}^{\left(N\right)}\right\}$. The first and the second set designate training sets of ischemic ST episode and normal part, respectively. Each point is described by three components $\left({\mathit{\text{feature}}}_{1},{\mathit{\text{feature}}}_{2},{\mathit{\text{feature}}}_{3}\right)$.
The quantities ${b}_{i}^{\left(N\right)}$ and ${b}_{i}^{\left(S\right)}$ $\left(1\le i\le 3\right)$ are called kernel bandwidths. We calculate these bandwidths for each class (N or S) and component $\left(1\le i\le 3\right)$. These kernel bandwidths impact accuracy of kernel density estimation [32].
We choose half of the mean, $\frac{1}{2}{\mathit{\text{mean}}}_{i}^{\left(\mathrm{cl}\right)}$, as kernel bandwidth ${b}_{i}^{\left(\mathrm{cl}\right)}$ for each class cl (N or S), and component i $\left(1\le i\le 3\right)$.
Classification with the use of support vector machine
where the matrix H is expressed as ${H}_{\mathrm{ij}}\equiv {t}_{i}^{\left(\mathrm{cl}\right)}{t}_{j}^{\left(\mathrm{cl}\right)}K\left({\mathbf{x}}_{i}^{\left(\mathrm{cl}\right)},{\mathbf{x}}_{j}^{\left(\mathrm{cl}\right)}\right)={t}_{i}^{\left(\mathrm{cl}\right)}{t}_{j}^{\left(\mathrm{cl}\right)}\varphi \left({\mathbf{x}}_{i}^{\left(\mathrm{cl}\right)}\right)\xb7\varphi \left({\mathbf{x}}_{j}^{\left(\mathrm{cl}\right)}\right)={t}_{i}^{\left(\mathrm{cl}\right)}{t}_{j}^{\left(\mathrm{cl}\right)}{e}^{-\frac{1}{3}{\u2225{\mathbf{x}}_{i}^{\left(\mathrm{cl}\right)}-{\mathbf{x}}_{j}^{\left(\mathrm{cl}\right)}\u2225}^{2}}$ [33]. When we classify a new pattern y, we examine decision function, $\mathrm{sgn}\left(\sum _{j=1}^{{n}_{\mathrm{cl}}}{t}_{j}^{\left(\mathrm{cl}\right)}{\alpha}_{j}K\left({\mathbf{x}}_{j}^{\left(\mathrm{cl}\right)},\mathbf{y}\right)+b\right)$. Whenever the input training set $\left\{{\mathbf{x}}_{1}^{\left(\mathrm{cl}\right)},{\mathbf{x}}_{2}^{\left(\mathrm{cl}\right)},\xb7\; \xb7\; \xb7\phantom{\rule{0.3em}{0ex}},{\mathbf{x}}_{{n}_{\mathrm{cl}}}^{\left(\mathrm{cl}\right)}\right\}$ was changed, we varied the parameter C to find its value which produced the highest classification rate.
Experiments setting
We used kernel density estimation and support vector machine methods to evaluate the proposed approach. We completed the experiment for each channel and record available in the European ST-T database. First, we trained the classifier based on a subset of ST episodes and normal ECG. Then we tested how well the feature values discriminated the two classes, ST episode and normal. When we formed the ST episode data, we used all the ischemic ST episodes except ST deviations data resulted from non-ischemic causes such as position related changes in the electrical axis of the heart. To preserve balance between ST episode and normal ECG data, we collected normal data from the beginning of each record as much as the amount of ST episode data. When dividing the data into training and test sets, we assigned one tenth of data to the training data, and the rest to the test data. In the cases of e0106 lead 0, e0110, e0136, e0170, e0304, e0601, and e0615 records, we constructed the training data of one third of all data and test data of two thirds because these records had much small ischemic ST episode data. To avoid ambiguous region between ischemic ST episode and normal ECG, we removed 10 seconds amount of ECG data from each side of the boundary.
When we classified a test set $\left\{{\mathbf{y}}_{i}\right\}$, four quantities were computed: true positive (TP), false negative (FN), false positive (FP), and true negative (TN). TP is a number of ischemic events correctly detected. FN is a number of erroneously rejected (missed) ischemic events. FP is a number of non-ischemic, that is, normal parts which the classifier erroneously detected as ischemic events. TN is a number of normal parts which our classifier correctly rejected as non-ischemic events [34]. These are numbers of corresponding y _{ i } points which were obtained by averaging three feature values of successive five beats in Algorithm 2. The sensitivity and specificity are expressed in a usual fashion, Se=TP/(TP + FN) and Sp=TN/(TN + FP) respectively [6].
We tested the classifiers by counting how many ST episodes were correctly caught, out of 367 episodes in the 85 records of European ST-T database. For an interval of ischemic ST episode data, we formed n test points $\left\{{\mathbf{y}}_{1},{\mathbf{y}}_{2},\xb7\; \xb7\; \xb7\phantom{\rule{0.3em}{0ex}},{\mathbf{y}}_{n}\right\}$ from the data (Algorithm 2), and classified each test point and then counted numbers of two classes, “ischemic” and “normal”. If the number of class “ischemic” was larger than n/2, we declared the interval to be an ischemic ST episode. The experiments were completed for 367 ischemic ST episodes.
We compared the results of kernel density estimation (KDE) and support vector machine (SVM) methods with those formed by artificial neural network (ANN). The corresponding ANN classifier exhibits the following topology. The input layer has three nodes which accept featur e _{1} featur e _{2} and featur e _{3}respectively. The output layer has two nodes which have target values (1, 0) and (0, 1) in the cases of “ischemia” and “normal” classes, respectively. We initialized bias weights as 0, and assigned random values between -1.0 and 1.0 to the weights of the network. The learning was carried out by running the backpropagation method [17] for 3000 iterations. We used a sigmoid activation function $1/\left(1+{e}^{-x}\right)$ and set learning rate 0.01. We adopted various topologies of hidden layers such as $3\to \left(5\right)\to \left(5\right)\to 2$ $3\to \left(6\right)\to 2$ $3\to \left(7\right)\to 2$ and $3\to \left(8\right)\to 2$ where the number in each parenthesis represents a number of nodes in the corresponding hidden layer. We used stochastic (incremental) gradient descent method to alleviate some drawbacks of the standard gradient descent method, see [17].
Results
KDE with various kernels
Classification results with respect to various kernels
Kernel |
Factor |
Se. |
Sp. |
TP |
TN |
FP |
FN |
Detect |
---|---|---|---|---|---|---|---|---|
Gaussian |
0.5 |
0.939 |
0.912 |
27600 |
21441 |
2075 |
1794 |
349 |
Rectangular |
1.5 |
0.892 |
0.913 |
26209 |
21460 |
2056 |
3185 |
329 |
Epanechnikov |
1.7 |
0.904 |
0.915 |
26583 |
21522 |
1994 |
2811 |
335 |
Byweight |
2.0 |
0.912 |
0.916 |
26794 |
21533 |
1983 |
2600 |
333 |
Triweight |
2.1 |
0.916 |
0.916 |
26923 |
21542 |
1974 |
2471 |
336 |
Triangular |
1.8 |
0.908 |
0.917 |
26680 |
21554 |
1962 |
2714 |
334 |
Classification results of Gaussian kernels with respect to various bandwidths
Factor |
Se. |
Sp. |
TP |
TN |
FP |
FN |
Detect |
---|---|---|---|---|---|---|---|
0.2 |
0.943 |
0.867 |
27728 |
20399 |
3117 |
1666 |
353 |
0.3 |
0.944 |
0.893 |
27745 |
20996 |
2520 |
1649 |
352 |
0.4 |
0.942 |
0.905 |
27697 |
21279 |
2237 |
1697 |
351 |
0.5 |
0.939 |
0.912 |
27600 |
21441 |
2075 |
1794 |
349 |
0.6 |
0.934 |
0.915 |
27453 |
21526 |
1990 |
1941 |
343 |
0.7 |
0.929 |
0.916 |
27318 |
21550 |
1966 |
2076 |
338 |
0.8 |
0.924 |
0.916 |
27148 |
21529 |
1987 |
2246 |
337 |
Results for KDE, SVM and ANN with various wavelets
Classification results for KDE with respect to various wavelets
Wavelet |
Se. |
Sp. |
TP |
TN |
FP |
FN |
Detect |
---|---|---|---|---|---|---|---|
Haar |
0.915 |
0.893 |
25906 |
20245 |
2420 |
2418 |
339 |
Daubechies4 |
0.936 |
0.906 |
27488 |
21130 |
2186 |
1886 |
343 |
Daubechies8 |
0.939 |
0.912 |
27600 |
21441 |
2075 |
1794 |
349 |
Daubechies10 |
0.942 |
0.916 |
27862 |
21585 |
1969 |
1710 |
348 |
Coiflet6 |
0.934 |
0.900 |
28586 |
21837 |
2430 |
2027 |
349 |
Coiflet12 |
0.932 |
0.914 |
27846 |
21757 |
2041 |
2045 |
349 |
Coiflet18 |
0.937 |
0.919 |
27721 |
21612 |
1911 |
1859 |
349 |
Classification results for KDE versus selected values of bandwidths and types of wavelets
Factor |
Haar |
Daub4 |
Daub8 |
Daub10 |
Coif6 |
Coif12 |
Coif18 | |||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
0.2 |
1.770 |
348 |
1.797 |
348 |
1.811 |
353 |
1.817 |
355 |
1.794 |
356 |
1.812 |
360 |
1.825 |
354 |
0.3 |
1.797 |
350 |
1.825 |
350 |
1.837 |
352 |
1.843 |
356 |
1.822 |
354 |
1.833 |
357 |
1.848 |
353 |
0.4 |
1.808 |
345 |
1.838 |
344 |
1.847 |
351 |
1.856 |
353 |
1.833 |
354 |
1.844 |
355 |
1.857 |
354 |
0.5 |
1.808 |
339 |
1.842 |
343 |
1.851 |
349 |
1.859 |
348 |
1.834 |
349 |
1.846 |
349 |
1.856 |
349 |
0.6 |
1.806 |
336 |
1.840 |
339 |
1.849 |
343 |
1.857 |
343 |
1.832 |
345 |
1.843 |
346 |
1.854 |
346 |
0.7 |
1.800 |
331 |
1.836 |
336 |
1.846 |
338 |
1.853 |
338 |
1.829 |
340 |
1.837 |
341 |
1.849 |
344 |
0.8 |
1.792 |
325 |
1.829 |
334 |
1.839 |
337 |
1.848 |
335 |
1.824 |
334 |
1.831 |
339 |
1.842 |
340 |
Classification results for SVM for various wavelets
Wavelet |
C |
Se. |
Sp. |
TP |
TN |
FP |
FN |
Detect |
---|---|---|---|---|---|---|---|---|
Haar |
291.3 |
0.924 |
0.907 |
26163 |
20547 |
2118 |
2161 |
345 |
Daubechies4 |
242.9 |
0.937 |
0.923 |
27527 |
21519 |
1797 |
1847 |
349 |
Daubechies8 |
245.5 |
0.941 |
0.923 |
27658 |
21712 |
1804 |
1736 |
355 |
Daubechies10 |
174.3 |
0.943 |
0.927 |
27894 |
21838 |
1716 |
1678 |
349 |
Coiflet6 |
288.2 |
0.933 |
0.918 |
28571 |
22284 |
1983 |
2042 |
348 |
Coiflet12 |
52.8 |
0.929 |
0.918 |
27757 |
21858 |
1940 |
2134 |
348 |
Coiflet18 |
23.4 |
0.936 |
0.927 |
27692 |
21805 |
1718 |
1888 |
352 |
Results for ANN classifiers with respect to various wavelets and sizes of hidden layers
Wavelet |
$\mathbf{3}\mathbf{\to}\mathbf{\left(}\mathbf{5}\mathbf{\right)}\mathbf{\to}\mathbf{\left(}\mathbf{5}\mathbf{\right)}\mathbf{\to}\mathbf{2}$ |
$\mathbf{3}\mathbf{\to}\mathbf{\left(}\mathbf{6}\mathbf{\right)}\mathbf{\to}\mathbf{2}$ |
$\mathbf{3}\mathbf{\to}\mathbf{\left(}\mathbf{7}\mathbf{\right)}\mathbf{\to}\mathbf{2}$ |
$\mathbf{3}\mathbf{\to}\mathbf{\left(}\mathbf{8}\mathbf{\right)}\mathbf{\to}\mathbf{2}$ | ||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|
Haar |
0.851 |
0.920 |
311.8 |
0.866 |
0.916 |
319.2 |
0.867 |
0.917 |
319.1 |
0.867 |
0.916 |
320.7 |
Daub4 |
0.866 |
0.932 |
304.2 |
0.881 |
0.930 |
313.7 |
0.880 |
0.932 |
315.2 |
0.881 |
0.931 |
317.8 |
Daub8 |
0.864 |
0.931 |
307.2 |
0.878 |
0.929 |
317.9 |
0.875 |
0.931 |
319.4 |
0.880 |
0.932 |
319.4 |
Daub10 |
0.866 |
0.939 |
312.5 |
0.882 |
0.935 |
321.8 |
0.885 |
0.935 |
325.5 |
0.882 |
0.937 |
325.1 |
Coif6 |
0.848 |
0.930 |
311.2 |
0.868 |
0.920 |
319.3 |
0.863 |
0.923 |
319 |
0.872 |
0.927 |
321 |
Coif12 |
0.855 |
0.936 |
310.5 |
0.868 |
0.933 |
318.2 |
0.866 |
0.935 |
319.6 |
0.874 |
0.935 |
319.8 |
Coif18 |
0.874 |
0.938 |
311.8 |
0.883 |
0.937 |
319.2 |
0.884 |
0.936 |
320.2 |
0.886 |
0.937 |
323.5 |
Tables 3 5 and 6 show that the Daubechies8 and Daubechies10 wavelets give us superior results. The shapes of these two wavelets are similar to typical ECG waveforms [37, 38]. From now on, we use the Daubechies8 wavelet exclusively.
Effects of baseline wandering in ECG
Classification results for KDE, SVM and ANN without removal of baseline wandering
Se. |
Sp. |
TP |
TN |
FP |
FN |
Detect | |
---|---|---|---|---|---|---|---|
KDE |
0.852 |
0.837 |
22132 |
17211 |
3342 |
3839 |
328 |
SVM |
0.870 |
0.835 |
22605 |
17161 |
3392 |
3366 |
326 |
ANN |
0.785 |
0.827 |
20388.8 |
17005.7 |
3547.3 |
5582.2 |
296.1 |
Classification results for KDE, SVM and ANN with incorrectly selected wavelet scales to remove baseline wandering
KDE |
SVM |
ANN | ||||||||
---|---|---|---|---|---|---|---|---|---|---|
Se. |
Sp. |
Detect |
Trade-off |
Se. |
Sp. |
Detect |
Se. |
Sp. |
Detect | |
scale 6 |
0.851 |
0.785 |
319 |
288.2 |
0.842 |
0.818 |
318 |
0.748 |
0.864 |
277.5 |
scale 7 |
0.931 |
0.905 |
344 |
232.8 |
0.932 |
0.915 |
349 |
0.876 |
0.933 |
320.7 |
scale 8 |
0.939 |
0.912 |
349 |
245.5 |
0.941 |
0.923 |
355 |
0.875 |
0.931 |
319.4 |
scale 9 |
0.929 |
0.906 |
347 |
110.4 |
0.930 |
0.918 |
350 |
0.859 |
0.918 |
320.7 |
scale 10 |
0.921 |
0.896 |
340 |
97.5 |
0.916 |
0.907 |
343 |
0.838 |
0.896 |
313.2 |
Effects of simulated noise
We examined performance of the classifiers when we added simulated noise into the original ECG signal. We modeled the noise as the sum of wandering baseline and AC power line 60 Hz noise.
where a is an amplification factor and b is an angular frequency of the added baseline. Here Samp _Freq means sampling frequency which was 250 Hz in our case. We varied a from 0.1 to 1.0 in step of 0.1, and selected b to be equal to 2, 4 or 6.
Classification results for KDE versus varying intensity of noise
a |
b=2 |
b=4 |
b=6 | ||||||
---|---|---|---|---|---|---|---|---|---|
0.1 |
0.937 |
0.903 |
346 |
0.934 |
0.902 |
346 |
0.933 |
0.904 |
346 |
0.2 |
0.933 |
0.893 |
346 |
0.927 |
0.892 |
341 |
0.916 |
0.879 |
337 |
0.3 |
0.929 |
0.884 |
342 |
0.915 |
0.873 |
340 |
0.908 |
0.856 |
338 |
0.4 |
0.925 |
0.864 |
346 |
0.903 |
0.852 |
344 |
0.885 |
0.834 |
327 |
0.5 |
0.916 |
0.858 |
346 |
0.882 |
0.848 |
333 |
0.871 |
0.817 |
333 |
0.6 |
0.906 |
0.866 |
343 |
0.872 |
0.832 |
329 |
0.858 |
0.803 |
321 |
0.7 |
0.891 |
0.856 |
340 |
0.859 |
0.815 |
325 |
0.848 |
0.794 |
322 |
0.8 |
0.887 |
0.850 |
339 |
0.852 |
0.799 |
325 |
0.838 |
0.793 |
317 |
0.9 |
0.881 |
0.849 |
341 |
0.837 |
0.798 |
312 |
0.837 |
0.778 |
301 |
1.0 |
0.870 |
0.844 |
335 |
0.832 |
0.787 |
317 |
0.824 |
0.779 |
319 |
Classification results for SVM with varying intensity of the simulated noise
a |
b=2 |
b=4 |
b=6 | |||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|
0.1 |
79.0 |
0.936 |
0.920 |
350 |
254.6 |
0.940 |
0.915 |
352 |
147.4 |
0.936 |
0.916 |
349 |
0.2 |
143.0 |
0.929 |
0.914 |
347 |
168.5 |
0.929 |
0.904 |
349 |
33.9 |
0.922 |
0.888 |
339 |
0.3 |
84.1 |
0.923 |
0.910 |
348 |
50.9 |
0.915 |
0.891 |
341 |
72.3 |
0.902 |
0.875 |
337 |
0.4 |
124.5 |
0.919 |
0.899 |
348 |
51.3 |
0.903 |
0.869 |
341 |
52.0 |
0.888 |
0.848 |
330 |
0.5 |
65.1 |
0.909 |
0.895 |
347 |
86.7 |
0.882 |
0.859 |
333 |
79.4 |
0.872 |
0.828 |
328 |
0.6 |
96.7 |
0.903 |
0.887 |
343 |
67.3 |
0.879 |
0.844 |
330 |
71.6 |
0.865 |
0.809 |
323 |
0.7 |
119.3 |
0.888 |
0.880 |
339 |
27.2 |
0.868 |
0.832 |
329 |
36.6 |
0.856 |
0.796 |
313 |
0.8 |
201.8 |
0.893 |
0.863 |
334 |
24.9 |
0.851 |
0.829 |
320 |
27.1 |
0.848 |
0.785 |
310 |
0.9 |
278.2 |
0.888 |
0.857 |
335 |
16.7 |
0.841 |
0.816 |
308 |
71.0 |
0.850 |
0.777 |
315 |
1.0 |
211.7 |
0.879 |
0.859 |
324 |
58.2 |
0.835 |
0.806 |
311 |
20.3 |
0.837 |
0.776 |
317 |
Classification results for ANN with varying intensity of the simulated noise
a |
b=2 |
b=4 |
b=6 | ||||||
---|---|---|---|---|---|---|---|---|---|
0.1 |
0.880 |
0.929 |
322.2 |
0.870 |
0.921 |
320.8 |
0.874 |
0.922 |
320.3 |
0.2 |
0.867 |
0.928 |
322.8 |
0.844 |
0.922 |
315.1 |
0.840 |
0.905 |
314.2 |
0.3 |
0.863 |
0.929 |
319.3 |
0.837 |
0.906 |
313.4 |
0.811 |
0.895 |
303.4 |
0.4 |
0.856 |
0.917 |
320.5 |
0.823 |
0.887 |
312.3 |
0.784 |
0.874 |
300.6 |
0.5 |
0.830 |
0.918 |
320.1 |
0.811 |
0.874 |
309.1 |
0.778 |
0.850 |
300.3 |
0.6 |
0.818 |
0.916 |
314.9 |
0.803 |
0.858 |
299.2 |
0.762 |
0.833 |
292 |
0.7 |
0.803 |
0.910 |
309.6 |
0.759 |
0.865 |
281.9 |
0.761 |
0.811 |
283.2 |
0.8 |
0.814 |
0.898 |
308.6 |
0.753 |
0.839 |
288.2 |
0.745 |
0.801 |
280.7 |
0.9 |
0.798 |
0.892 |
303.4 |
0.723 |
0.838 |
273.9 |
0.728 |
0.795 |
261.7 |
1.0 |
0.777 |
0.890 |
297.1 |
0.724 |
0.807 |
265.3 |
0.728 |
0.788 |
269.3 |
Comparison with others’ works
We used the Daubechies8 wavelet in Algorithm 1 to analyze the ECG waveform, and took the kernel bandwidths ${b}_{i}^{\left(\mathrm{cl}\right)}={\mathit{\text{mean}}}_{i}^{\left(\mathrm{cl}\right)}/2$ for the KDE classifier with Gaussian kernel. We used the SVM classifier with C=281.1.
Discussion
Table 1 showed how the classification results were dependent on various kernel functions in kernel density estimation. Gaussian kernel produced best results.
Tables 3, 4, 5 and 6 show how the classification results depend on mother wavelets used in Algorithm 1. Daubechies8 and Daubechies10 wavelets were best. Because we implemented wavelet transform program with the use of matrix multiplication, we selected Daubechies8 wavelet to reduce computational burden. Daubechies10 wavelet did not produce much better classification accuracy than Daubechies8 wavelet.
Tables 2 and 4 indicate that the choice of kernel bandwidths was reasonable. When we took the kernel bandwidths ${b}_{i}^{\left(\mathrm{cl}\right)}={\mathit{\text{mean}}}_{i}^{\left(\mathrm{cl}\right)}/2$ for class cl, 1≤i≤3, we obtained best results except for the case of Coiflet18 wavelet. Even in the case, the best parameter ${b}_{i}^{\left(\mathrm{cl}\right)}=0.4\xb7{\mathit{\text{mean}}}_{i}^{\left(\mathrm{cl}\right)}$ was close enough to ${b}_{i}^{\left(\mathrm{cl}\right)}={\mathit{\text{mean}}}_{i}^{\left(\mathrm{cl}\right)}/2$. We maintained this choice in Tables 7, 8 and 9. In this way, we could automatically select 6 kernel bandwidths, and this exempted us from choosing any numerical parameters.
The SVM classifiers in Tables 5, 7 and 8 produced better results than the KDE classifiers, but they required us to determine optimal value of the parameter C. Whenever we used different wavelets on the same data set in Table 5, we had to choose different trade-off parameter C. This was also the case in Table 8 where we intentionally selected incorrect wavelet scales to remove baseline wandering.
Order of magnitude of feature _{3}was very different from feature _{1}and feature _{2}. When we produced the feature values using Daubechies8 wavelet in Algorithm 1, mean values of $\left|{\mathit{\text{feature}}}_{1}\right|$, $\left|{\mathrm{feature}}_{2}\right|$ and $\left|{\mathrm{feature}}_{3}\right|$ were 7.327, 7.613 and 0.004, respectively. Thus we had to normalize the feature values to use them in classification. Even if the orders of magnitude of featur e _{1}, featur e _{2} and featur e _{3}were very different, the equation of kernel density estimation included a term $\frac{1}{{b}_{1}^{\left(\mathrm{cl}\right)}{b}_{2}^{\left(\mathrm{cl}\right)}{b}_{3}^{\left(\mathrm{cl}\right)}}\sum _{i}{e}^{-\frac{1}{2}\sum _{j=1}^{3}{\left(\frac{{\left[\mathbf{y}\right]}_{j}-{\left[{\mathbf{x}}_{i}^{\left(\mathrm{cl}\right)}\right]}_{j}}{{b}_{j}^{\left(\mathrm{cl}\right)}}\right)}^{2}}$. Furthermore each operand in the sum comes in the form of $\frac{{\left[\mathbf{y}\right]}_{j}-{\left[{\mathbf{x}}_{i}^{\left(\mathrm{cl}\right)}\right]}_{j}}{{b}_{j}^{\left(\mathrm{cl}\right)}}$, normalization by kernel bandwidth. We thought these would be helpful to overcome the difference of order of magnitude between featur e _{1}, featur e _{2} and featur e _{3}. This was a main driving force to adopt the kernel density estimation.
We implemented the KDE and ANN classifier in C language for ourselves. For SVM classifier, we used libsvm library [33]. We compiled the programs with gcc and g++ without using any SIMD (single instruction multiple data) math library. Total amount of ECG text files which we used in our analysis was 200.4 MB. This amount is just about voltage information not including time information. When we ran our programs to process the ECG text files in Pentium4 3.2 GHz CPU, it took 243.0 seconds until the procedures of removing baseline wandering and detecting time positions in Algorithm 1 were completed. This was when we used Daubechies8 wavelet. Feature extraction in Algorithm 2, required 0.6 seconds. It took 1.2 seconds for the KDE classifier to process all the files. The SVM classifier required 0.8 seconds for the same job. The ANN classifier with layer composition $3\to \left(7\right)\to 2$ required 94.7 seconds.
We compared our QRS detection algorithm with Hamilton and Tompkins’ algorithm [40] which was implemented in C language as an open source software [41]. We supplanted the portion from DWT of fecg(n) to making idx _QRS _Peak(n) in Algorithm 1, with the Hamilton and Tompkins’ program. When we ran the modified program to process the procedures of removing baseline wandering and detecting time positions, it took 59.5 seconds which was approximately four times faster than ours. However the KDE classifier produced the results of (sensitivity, specificity, detect) being (0.904, 0.891, 329). These results are somewhat inferior compared to the results in Table 2.
Conclusions
The ST segment deviation in ECG can be an indicator of myocardial ischemia. If we can predict an ischemic syndrome as early as possible, we will be able to prevent more severe heart disease such as myocardial infarction [8, 9].
To detect ischemic ST episode, we adopted a method directly using morphological features of ECG waveforms. We did not use weight tuning methods such as artificial neural network or decision tree because we wanted to show explicitly which features of ECG waveforms were meaningful to detect ischemic ST episodes. In this regard, we calculated three feature values for each heart beat. They were area between QRS offset and T-peak points, normalized and signed sum from QRS offset to effective zero voltage point, and slope from QRS onset to offset point. After calculating these feature values for each heart beat, we averaged the values of successive five beats because we wanted to reduce outlier effects. The order of magnitude of the third feature value, the slope from QRS onset to offset point, was very different from the other two feature values. To take care of this problem, we considered classification method by kernel density estimation.
We described how we removed baseline wandering in ECG, and detected time positions of QRS complexes by the discrete wavelet transform. Since our classifier selects automatically kernel bandwidths in kernel density estimation, virtually it does not require any numerical parameter which operator should provide. In the tests, SVM with optimal parameters showed just a slightly better classification accuracy than the proposed method, but finding those parameters is a heavy burden compared with the proposed method. We can conclude that overall our proposed method is efficient enough and has more advantages than existing methods.
Acknowledgements
This work was supported by the systems biology infrastructure establishment grant provided by Gwangju Institute of Science & Technology, Korea.
Supplementary material
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