Research Article | Open Access
Suresh Chandra Satapathy, Venkatesan Rajinikanth, "Jaya Algorithm Guided Procedure to Segment Tumor from Brain MRI", Journal of Optimization, vol. 2018, Article ID 3738049, 12 pages, 2018. https://doi.org/10.1155/2018/3738049
Jaya Algorithm Guided Procedure to Segment Tumor from Brain MRI
Brain abnormality is a cause for the chief risk factors in human society with larger morbidity rate. Identification of tumor in its early stage is essential to provide necessary treatment procedure to save the patient. In this work, Jaya Algorithm (JA) and Otsu’s Function (OF) guided method is presented to mine the irregular section of brain MRI recorded with Flair and T2 modality. This work implements a two-step process to examine the brain tumor from the axial, sagittal, and coronal views of the two-dimensional (2D) MRI slices. This paper presents a detailed evaluation of thresholding procedure with varied threshold levels (Th=2,3,4,5), skull stripping process before/after the thresholding practice, and the tumor extraction based on the Chan-Vese approach. Superiority of JA is confirmed among other prominent heuristic approaches found in literature. The outcome of implemented study confirms that Jaya Algorithm guided method is capable of presenting superior values of Jaccard-Index, Dice-Coefficient, sensitivity, specificity, accuracy, and precision on the BRATS 2015 dataset.
Image processing procedure plays a vital role in therapeutic data examination [1, 2]. Brain abnormalities such as tumor and stroke are the chief risk factors in human society which affects the people irrespective of their gender and geographical location. Usually, the severity and the cause for the brain abnormalities are diagnosed in medical clinics based on a predefined procedures constructed by experienced doctors. This procedures involves in the recording the signals and the images of brain under a controlled environment. After recording the essential information from the patient, a prescreening procedure is to be executed using the manual or automated procedures to assess the cause and the harshness of the severity. After the prescreening process, a prescribed clinical evaluation procedure is then executed with the patient in order to arrange for further handling procedure to control and cure the abnormalities .
Normally, the condition of the brain can be evaluated based on a single-channel and multichannel EEG signals recorded using the external electrodes or the brain images recorded with MRI and CT imaging approaches [4–7]. Previous study confirms that information existing in brain image is essential to categorize and localize the abnormality compared to the brain signals . If needed, a mapping of brain signal and image can also be carried to locate the cause and region of the brain abnormality.
In literature, a considerable amount of conventional and soft-computing guided measures are widely employed to examine the brain pictures recorded with MRI and CT [9, 10]. The information available in MRI is better compared to CT because of its multimodality, since the MRI supports a range of modalities, like Flair, T1, T1C, T2, and DW [11–14]. The visibility of the abnormality in Flair and T2 modality is superior to other approaches. Hence, in this paper, the brain images recorded with the Flair and T2 are used for the examination.
This work implements a two-stage scheme to mine and appraise the tumor using the Jaya Algorithm (JA) and Otsu’s Function (OF) based thresholding and the Chan-Vese (CV) based segmentation procedure to extract the abnormal section from the two-dimension (2D) slices of the brain MRI. The performance of JA is confirmed against other heuristic algorithms existing in the literature. Correctness of the proposed approach is also confirmed by computing the image likeliness measures based on a comparative study linking the mined tumor section and the ground-truth (GT) image. The experimental results of this work confirm that the JA assisted procedure tenders improved result on the 2D brain slices recorded with Flair and T2 modalities.
2. Related Previous Works
In brain imaging literature, a significant number of conventional and soft-computing (SC) based techniques are discussed and executed to extract and evaluate the brain abnormality. The earlier works also suggests that traditional approaches may implement a single-step or two-step procedure to extract the abnormal section from the chosen MRI slice [11, 15, 16]. Most of these procedures are modality specific and works well only for few modality cases, such as Flair and T2. To overcome these limitations, heuristic algorithm assisted two-step events are broadly adopted to examine the brain abnormality recorded using MRI of various modalities. Palani et al. (2016) implemented a SC approach to segment the soft brain tissues using a two-step procedure based on Otsu’s thresholding . Chaddad (2015) implemented Gaussian mixture model technique to support automated feature extraction in brain tumor extracted from MRI . Dey et al. (2015) applied genetic algorithm tuned interval filter to remove noise in brain MRI . Rajinikanth and Satapathy (2018) implemented a detailed evaluation of the brain MRI with various segmentation approaches . The works of Rajinikanth et al. (2017) also implemented various heuristic evaluation procedures to separate the abnormal area from brain MRI recorded with a range of modalities . The work of Rajinikanth et al. (2018) also confirmed that the need for image fusion methods to enhance the accuracy in brain MRI evaluation . Recently, Amin et al. (2017; 2018) proposed a distinctive approach as well as the deep-learning procedure to extract the abnormal sections from the brain MRI [4, 5]. Every machine-learning and deep-learning method in the literature discuss about their own merit and demerits. The brain MRI examination procedure always needs efficient as well as reliable procedures to mine and evaluate the strange segment from the brain picture .
Researchers have already implemented a considerable number of swarm-based/evolutionary approaches to examine the brain MRI [9, 13]. This paper attempts a methodology to implement the recently developed approach called the Jaya Algorithm (JA). The literature also confirms that implementation of JA is quite simple contrast to former heuristic schemes [20–23]. Further, this paper implements the Chan-Vese method to mine the tumor section in preprocessed picture. Finally, the superiority of executed approach is confirmed using a qualified investigation among the extracted tumor section and the GT picture .
3. Materials and Methods
This division of the manuscript provides the details of the two-step procedure employed to inspect the abnormality of brain MRI. This section presents the summary of the pre- and postprocessing methods implemented to examine the test pictures of 2D brain MRI.
Figure 1 shows the stages involved in the proposed work. This technique initially considers a 2D MRI slice as the test pictures to be processed. The preprocessing stage enhances the abnormal region of the test picture by implementing a multithresholding scheme with or without the skull section. Recent work of Rajinikanth and Satapathy (2018) discussed that skull-elimination is essential to implement fully automated disease examination schemes . The outcome of the initial stage is then processed by the postprocessing stage, which implements a chosen image separation method to extort the abnormal section. The performance of MRI examination method is then established by a relative analysis among extracted tumor section and GT picture. Final result of this scheme is then considered to support the decision making and treatment planning procedure.
3.1. Preprocessing Stage
It is the initial step in the two-stage process. This implements a multithresholding process to enhance the tumor section of 2D test picture. This stage implements the Jaya Algorithm (JA) assisted Otsu’s between-class variance procedure for different threshold (Th) levels (Th = 2,3,4,5) on the chosen test image. Later, the image quality metrics are computed for these images to discover the best threshold for the image enhancement.
3.1.1. JAYA Algorithm
JA is a newly invented evolutionary algorithm by Rao (2016)  and its theory and the working principle can be found in [21–23]. The chief merit of the JA compared with other considered heuristic/evolutionary approaches, such as the Firefly Algorithm (FA), Teaching-Learning Based Optimization (TLBO), Particle-Swarm-Optimization (PSO), Bacterial-Optimization (BFO), and Bat-Algorithm (BA), involves minimal early parameters to be assigned [2, 12–14, 19, 24–27].
Let G(x)max is the preferred objective function, = are subjective quantities of option 0,1], N is population amount (i.e., n=1,2,…,N), and i and D indicates the amount of iterations and dimensions (i.e., j=1,2,…,D) correspondingly.
At some occurrence in the algorithm, G(x)best and G(x)worst signify the finest and worst results reached through the contestant in population.
The prime equation of JA is presented below:where signify the jth variable of nth contestant at ith iteration and indicate the modernized value. In this work, JA is utilized to discover the maximized value of the Otsu’s between-class variance value for a chosen ‘Th’.
3.1.2. Otsu’s Function
From the year 1979, Otsu’s thresholding is broadly considered to enhance the traditional and medical images . The theory of Otsu is as follows: for multithresholding problem (Th=2,3,4,5), input image is separated into various groups from H0 and based on the chosen Th. The class H0 encloses the gray levels in the range 0 to t-1 and class HTh-1 encircles the gray levels from t to L – 1. The probability distributions for gray levels H0 and HTh−1 can be articulated as [37, 38]where and L=256.
The mean levels m0, …, mTh-1 for can be articulated asThe mean intensity (mT) of total picture can be represented asThe objective function for the bilevel thresholding problem can be expressed aswhere σ0=ω0( - (- .
During the realization of the preprocessing stage, the initial JA factors are allotted as follows: agents size (N) = 20, number of iterations=2000, dimension of explore (D) =Th, and the stopping criterion if the maximized Otsu’s value.
Initially, the 2D slices of Cerebrix and Brainix images of size 256x256 pixels are considered for the examination . These images are associated with the skull section. Hence, the proposed paper implements the skull-elimination procedure under the following conditions: (i) skull stripping before the thresholding and (ii) skull stripping after the thresholding. Similarly, in order to confirm the best threshold during the initial picture processing, various thresholds are chosen (Th=2,3,4,5) and the superiority of the outcome is assessed using the image quality measure values, such as RMSE, PSNR, SSIM, NCC, AD, and SC (Satapathy et al. 2018); further, the CPU runtime in seconds also recorded to choose the threshold level in order to get the better throughput during the image analysis. The thresholding procedure is initially implemented with JA+Otsu. Later, other heuristic approaches are considered to validate the superiority of JA compared to the chosen heuristic procedures. Finally, the abnormal section of the brain MRI is extracted using the Chan-Vese segmentation procedure.
This section implements the Chan-Vese (CV) active-contour practice to mine the irregular section from preprocessed MRI . CV is a bounding box based semiautomated technique implemented by Chan and Vese to extract the information from the test pictures . Recently, CV is widely adopted to extract the chosen regions of medicinal image under assessment [43–45]. The working of CV is similar to the level-set procedure, in which the edges of the box are corrected incessantly based on the allocated iteration quantity. If grouping of pixel inside the box is over, the area within the contour will be extracted and displayed. In this work, CV is utilized to mine the irregular section (tumor) from preprocessed brain MRI of Flair and T2 modality [15, 46].
The major aim of this paper is to extract tumor in the 2D brain MRI and to compute the features of tumor region for further study. In this work, two kinds of data, such as brain MRI with and without the ground truth (GT), are considered. Image likeness values, such as Jaccard-Index (JI), Dice-Coefficient (DC), False-Positive-Rate (FPR), and False-Negative-Rate (FNR), are computed for MRI with GT [2, 9, 47].
The arithmetic expression is shown below:where IGT symbolize the GT and IO symbolize mined region.
Further, values, like sensitivity (SE), specificity (SP), accuracy (AC), precision (PR), Balanced-Classification-Rate (BCR), and Balanced-Error-Rate (BER), are measured. Mathematical expression for these parameters is given below:where TN, TP, FN, and FP indicates true-negative, true-positive, false-negative, and false-positive, correspondingly.
4. Results and Discussion
This division of the paper presents the investigational outcome of the proposed methodology using the brain MRI of Brainix (256x256 pixels), Cerebrix (256x256 pixels), and BRATS 2015 (216x160 pixels) database . The work is executed in Matlab7 using a system; AMD C70 Dual Core 1 GHz CPU with 4 GB of RAM. The work implemented in this paper is as follows: (i) selecting the 2D brain MRI slices, (ii) implementation of skull stripping procedure, (iii) thresholding based enhancement with JA+Otsu, (iv) extraction of the tumor using CV, and (v) computation of picture similarity values to validate the implemented procedure.
Initially, the chosen test images of Brainix dataset is considered for the evaluation, and the various modality based 2D slices of this dataset is depicted in Figure 2. Later, a skull-elimination procedure discussed by Rajinikanth et al. (2017) is implemented for this test pictures and its outcome is presented in Figure 3 .
(b) Skull of Slice1
(d) Skull of Slice2
Figures 3(a) and 3(c) show the skull stripped soft brain regions and Figures 3(b) and 3(d) show the stripped skull section. The gray histogram of Flair modality image of Figure 2(a) is presented in Figure 4. Figure 4(a) shows the histogram with the skull section and Figure 4(b) shows the histogram without the skull. From these images, it can be observed that the peak histogram distribution is approximately similar in both the cases. This confirms that the multithresholding result will be approximately similar for both the image cases. From this, it is clear that the skull region will not affect the quality of the multithresholding output of the brain MRIs. Similar results are obtained for other cases, such as T1 and T2 modalities. The visibility of tumor in T1 modality is poor, hence in this paper only the Flair and T2 modality MRIs are considered for the evaluation.
(a) Histogram with skull
(b) Histogram without skull
Initially, in order to know the best threshold level for the preprocessing of the image, the JA+Otsu based approach is implemented with various threshold values, like Th=2,3,4,5 and the equivalent outcomes are described in Figure 5. It confirms that the skull stripping task can also be implemented after the thresholding task. To decide the best threshold level for the MRI, the image similarity values are calculated based on a relative analysis among the original test image and the thresholded image, and its outcomes are described in Table 1. When Th=2, the visibility of tumor section in the preprocessed image is very poor. When threshold level increases, the image quality measure as well as the CPU run time increases. From this study, it can be noted that Th=3 tender enhanced thresholding outcome with minimised CPU time compared with Th=4 and 5. Hence, in this paper, trilevel threshold is chosen to preprocess the test pictures considered in this study.
The thresholding performance of the JA algorithm is then tested against other heuristic/evolutionary approaches, such as FA, TLBO, PSO, BFO, and BA and the convergence of this optimization search for Th=2 (axial view Flair MRI) is presented in Figure 6. This result confirms that the average CPU time taken by the JA is lesser compared to the BFO and PSO algorithms for the chosen test image. The FA, TLBO, and BA offer better CPU time for the chosen images, but the number of initial parameters to be assigned in JA is smaller than these approaches. This result confirms that JA can be chosen to preprocess the brain MRI compared to the alternative approaches chosen in this paper.
After implementing the preprocessing with JA+Otsu, the CV segmentation procedure is then implemented to extract the tumor section from the axial view brain MRI. Figure 7 shows the outcome of the postprocessing section obtained with a sample test picture. As shown in Figure 7(b), initially a bounding box over the tumor region is assigned manually. When the Chan-Vese approach is executed, the bounding box will shrink toward the inner region in order to identify all the possible pixel values of the tumor section. This shrinking process will be executed based on the assigned iteration value, after completing the iteration; the pixel region bounded by the CV contour is extracted and is presented as the tumor section. Figure 7(c) depicts the final contour of the CV and Figure 7(d) shows the extracted tumor section. Similar procedure is implemented for other test images considered in this paper. Further, the segmentation performance of the CV is also confirmed against active-contour (AC) and Region Growing (RG) techniques existing in the literature.
(a) Preprocessed image
(b) Initial bounding box
(c) Final CV
(d) Extracted tumor
Figure 8 shows the sample images of coronal and sagittal views of Cerebrix dataset. When compared with the axial view, skull stripping and the tumor extraction are quite difficult in these views due to its image complexity. Recent works confirm that an efficient skull-elimination procedure will help to overcome this difficulty . Initially, the skull-elimination is implemented to separate the soft brain section from the high intensity skull using the procedure discussed in . Later, the preprocessing and the postprocessing approaches are implemented for these images in order to extract the tumor section.
Figure 9 presents the outcome of the proposed technique with the sample Cerebrix MRIs. Figure 9(a) presents the preprocessed test picture and Figures 9(b), 9(c), and 9(d) show the extracted tumor sections with CV, AC, and RG, respectively. The Cerebrix dataset does not have the ground-truth (GT) image. Hence, in order to validate the performance of proposed approach, grand challenge benchmark image dataset called the BRATS2015 dataset is considered.
(a) Test picture
The main advantage of the BRATS2015 dataset compared to the Brainix and Cerebrix is as follows: (i) it has a skull stripped 3D brain MRI from which the required amount of 2D slices can be extracted, (ii) it supports the modalities, such as Flair, T1, T1C, and T2, and (iii) it has a common GT picture offered by an expert member. Due to this reason, BRATS images are widely adopted by most of the researchers to test their disease examination tool .
Figure 10 shows the sample test images of axial view MRI recorded with various modalities and its corresponding GT. In this paper, the Flair and T2 modality images are considered for the study. Figure 11 shows the JA+Otsu based trilevel thresholding result for the chosen BRATS dataset and also the segmentation results. Figure 11(a) shows the slice number, Figures 11(b) and 11(d) depict the preprocessed picture and Figures 11(c) and 11(e) show the extracted tumor region with CV technique.
Later, the superiority of implemented procedure is confirmed using a comparative study between the extracted tumor section and the GT, and the essential image similarity values and statistical values are computed for both the Flair and T2 modality cases. Tables 2 and 3 show the results obtained with the Flair modality test pictures. Similar results are attained for the T2 modality images. These tables confirm that proposed technique is efficient in attaining better values of JI, DC, sensitivity, specificity, accuracy, and precision compared with the segmentation procedures, like AC and RG considered in this study.
The overall performance (average of the image quality measures obtained for the trilevel thresholding) of the algorithms considered in this paper is depicted in Figure 12 and it confirms that the optimization performance of the JA is superior to other methods considered in this paper. In Figure 12, the x-axis numbers 1 to 6 denote the soft-computing methods, like JA, FA, TLBO, PSO, BFO, and BA correspondingly.
The main limitation of the proposed procedure is as follows: it is a semiautomated approach and requires the assistance of the operator to fix the threshold value during the preprocessing task and also requires the operators assistance during the bounding box initiation while implementing the CV segmentation. In future, the tumor segmentation and evaluation procedure can be automated by implementing the recent procedure known deep-learning approach. But, the complexity in training the required task is more compared to the approach discussed in this paper. The results of this paper confirm that proposed approach is very efficient in extracting the tumor section from various datasets considered in this paper. This paper also confirms that this approach works well on Flair and T2 modality MRIs.
In future, a feature extraction and classification procedure for the extracted tumor section can be implemented to classify the brain tumors, such as benign, and malignant. Further, the adopted brain MRI images can be examined using the deep-learning procedures based on the Neural Network (NN) [49–51] and its outcome can be compared and validated with the machine-learning procedure discussed in this work.
This paper implements the combination of a preprocessing and a postprocessing to mine the irregular section of the brain MRI. The preprocessing is implemented to enhance the tumor section using a multithresholding based on the Jaya Algorithm and Otsu’s function and the postprocessing implements the Chan-Vese (CV) segmentation procedure to extract the tumor. During this work, the brain MRI images are obtained from the benchmark datasets, such as Brainix, Cerebrix and BRATS2015. Initially, an excrement is implemented to recognize the best threshold value for the chosen problem, and the results of the preprocessing confirm that the trilevel thresholding offers better result for the brain tumor evaluation for both the Flair and T2 modalities. Later, the performance of CV is compared against the AC and RG procedures. The segmentation result confirms that CV offers better result compared to AC and RG. Finally, the overall performance of the proposed approach is tested and confirmed with the BRATS2015 brain MRI database. The investigational outcome of this study substantiates that JA+Otsu and CV based procedure offer improved picture excellence measures, image likeness measures, and image statistical measures for the considered dataset. In future, CV segmentation can be validated against other segmentation procedures existing in the medical imaging literature.
Previously reported Brain MRI data were used to support this study and are available at http://www.osirix-viewer.com/datasets/ and http://hal.inria.fr/hal-00935640. These prior studies and datasets are cited at relevant places within the text as [11, 42, 48].
Conflicts of Interest
The authors declare that there are no conflicts of interest regarding the publication of this paper.
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Copyright © 2018 Suresh Chandra Satapathy and Venkatesan Rajinikanth. This is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.