scholarly journals Brain MR Image Enhancement for Tumor Segmentation Using 3D U-Net

Sensors ◽  
2021 ◽  
Vol 21 (22) ◽  
pp. 7528
Author(s):  
Faizad Ullah ◽  
Shahab U. Ansari ◽  
Muhammad Hanif ◽  
Mohamed Arselene Ayari ◽  
Muhammad Enamul Hoque Chowdhury ◽  
...  
Keyword(s):  
Automatic Segmentation ◽  
Bias Field ◽  
Histogram Equalization ◽  
Tumor Segmentation ◽  
Artifact Removal ◽  
Brain Tumor Segmentation ◽  
Domain Experts ◽  
Bias Field Correction ◽  
Important Challenge ◽  
Ringing Artifact

MRI images are visually inspected by domain experts for the analysis and quantification of the tumorous tissues. Due to the large volumetric data, manual reporting on the images is subjective, cumbersome, and error prone. To address these problems, automatic image analysis tools are employed for tumor segmentation and other subsequent statistical analysis. However, prior to the tumor analysis and quantification, an important challenge lies in the pre-processing. In the present study, permutations of different pre-processing methods are comprehensively investigated. In particular, the study focused on Gibbs ringing artifact removal, bias field correction, intensity normalization, and adaptive histogram equalization (AHE). The pre-processed MRI data is then passed onto 3D U-Net for automatic segmentation of brain tumors. The segmentation results demonstrated the best performance with the combination of two techniques, i.e., Gibbs ringing artifact removal and bias-field correction. The proposed technique achieved mean dice score metrics of 0.91, 0.86, and 0.70 for the whole tumor, tumor core, and enhancing tumor, respectively. The testing mean dice scores achieved by the system are 0.90, 0.83, and 0.71 for the whole tumor, core tumor, and enhancing tumor, respectively. The novelty of this work concerns a robust pre-processing sequence for improving the segmentation accuracy of MR images. The proposed method overcame the testing dice scores of the state-of-the-art methods. The results are benchmarked with the existing techniques used in the Brain Tumor Segmentation Challenge (BraTS) 2018 challenge.

scholarly journals A Survey and Analysis on Automated Glioma Brain Tumor Segmentation and Overall Patient Survival Prediction

2021 ◽  
Author(s):  
Rupal Agravat ◽  
Mehul Raval
Keyword(s):  
Overall Survival ◽  
Brain Tumor ◽  
Automatic Segmentation ◽  
High Volume ◽  
Physical Symptoms ◽  
Tumor Segmentation ◽  
Survival Prediction ◽  
Neural Network Models ◽  
Brain Tumor Segmentation ◽  
Overall Survival Prediction

<div>Glioma is the most deadly brain tumor with high mortality. Treatment planning by human experts depends on the proper diagnosis of physical symptoms along with Magnetic Resonance(MR) image analysis. Highly variability of a brain tumor in terms of size, shape, location, and a high volume of MR images makes the analysis time-consuming. Automatic segmentation methods achieve a reduction in time with excellent reproducible results.</div><div>The article aims to survey the advancement of automated methods for Glioma brain tumor segmentation. It is also essential to make an objective evaluation of various models based on the benchmark. Therefore, the 2012 - 2019 BraTS challenges database evaluates state-of-the-art methods. The complexity of tasks under the challenge has grown from segmentation (Task1) to overall survival prediction (Task 2) to uncertainty prediction for classification (Task 3). The paper covers the complete gamut of brain tumor segmentation using handcrafted features to deep neural network models for Task 1. The aim is to showcase a complete change of trends in automated brain tumor models. The paper also covers end to end joint models involving brain tumor segmentation and overall survival prediction. All the methods are probed, and parameters that affect performance are tabulated and analyzed.</div>

scholarly journals Brain Tumor Segmentation in MRI Images using Convolution Neural Networks

2019 ◽  
Vol 8 (4) ◽  
pp. 2051-2054
Keyword(s):  
Brain Tumor ◽  
Automatic Segmentation ◽  
Important Task ◽  
Tumor Segmentation ◽  
Brain Tumor Segmentation ◽  
Brain Images ◽  
Medical Issues ◽  
Current Scenario ◽  
Exact Position ◽  
The Brain

Medical image processing is an important task in current scenario as more and more humans are diagnosed with various medical issues. Brain tumor (BT) is one of the problems that is increasing at a rapid rate and its early detection is important in increasing the survival rate of humans. Detection of tumor from Magnetic Resonance Image (MRI) of brain is very difficult when done manually and also time consuming. Further the tumors assume different shapes and may be present in any portion of the brain. Hence identification of the tumor poses an important task in the lives of human and it is necessary to identify its exact position in the brain and the affected regions. The proposed algorithm makes use of deep learning concepts for automatic segmentation of the tumor from the MRI brain images. The algorithm is implemented using MATLAB and an accuracy of 99.1% is achieved.

Automated Early Detection of Astrocytomas Tumor Based on Optimized Adaptive Cluster with Super Pixel Model

2021 ◽  
Vol 30 (06n08) ◽  
Author(s):  
V. K. Deepak ◽  
R. Sarath
Keyword(s):  
Brain Tumor ◽  
Medical Image ◽  
Automatic Segmentation ◽  
Tumor Segmentation ◽  
Low Grade ◽  
Grey Wolf ◽  
Dice Coefficient ◽  
Grey Wolf Optimization ◽  
Brain Tumor Segmentation ◽  
Better Than

In the medical image-processing field brain tumor segmentation is aquintessential task. Thereby early diagnosis gives us a chance of increasing survival rate. It will be way much complex and time consuming when comes to processing large amount of MRI images manually, so for that we need an automatic way of brain tumor image segmentation process. This paper aims to gives a comparative study of brain tumor segmentation, which are MRI-based. So recent methods of automatic segmentation along with advanced techniques gives us an improved result and can solve issue better than any other methods. Therefore, this paper brings comparative analysis of three models such as Deformable model of Fuzzy C-Mean clustering (DMFCM), Adaptive Cluster with Super Pixel Segmentation (ACSP) and Grey Wolf Optimization based ACSP (GWO_ACSP) and these are tested on CANCER IMAGE ACHRCHIEVE which is a preparation information base containing High Grade and Low-Grade astrocytoma tumors. Here boundaries including Accuracy, Dice coefficient, Jaccard score and MCC are assessed and along these lines produce the outcomes. From this examination the test consequences of Grey Wolf Optimization based ACSP (GWO_ACSP) gives better answer for mind tumor division issue.

A New Meta Heuristic Based Segmentation for MRI Image

2020 ◽  
Vol 10 (7) ◽  
pp. 1525-1533
Author(s):  
R. Meera ◽  
P. Anandan ◽  
N. Nandhagopal
Keyword(s):  
Histogram Equalization ◽  
Tumor Segmentation ◽  
Second Phase ◽  
The Novel ◽  
Brain Tumor Segmentation ◽  
Brain Images ◽  
Low Contrast ◽  
Migrating Birds Optimization ◽  
Image Pixels ◽  
Migrating Birds

An automated brain tumor segmentation and detection have huge importance in the diagnostics of medical field as it renders information about functional structures in addition to the probable abnormal tissue required for surgical planning. However, it is still a problem due to low contrast and poorly-specified boundaries and accuracy issue. Hence, Refined Migrating Birds Optimization (RMBO) algorithm is introduced for automatic tumor segmentation that gets over the disadvantage of classical metaheuristic segmentation techniques. The RMBO helps in improving both migration and position update steps which includes three phases. First phase starts from Preprocessing, film artifacts and unnecessary areas (skull) of MRI images are eliminated with the help of enhanced tracking algorithm. Next and second phase being the procedure of eliminating the noises employing Anisotropic Filtering and contrast enhancement is carried out with the help of histogram equalization. Finally segmentation is performed employing RMBO. The novel algorithm operates on the image pixels information along with regions/neighborhood map to generate a contextual area where the merging is possible. With the RMBO algorithm, MRI of brain images are segmented and the results are analyzed through the comparison of the existing techniques viz., Particle Swarm Optimization (PSO), Genetic algorithms.

Segmentation of Gliomas Based on a Double-Pathway Residual Convolution Neural Network Using Multi-Modality Information

2020 ◽  
Vol 10 (11) ◽  
pp. 2784-2794
Author(s):  
Mingyuan Pan ◽  
Yonghong Shi ◽  
Zhijian Song
Keyword(s):  
Neural Network ◽  
Surgical Navigation ◽  
Conditional Random Field ◽  
Automatic Segmentation ◽  
Convolution Neural Network ◽  
Radiotherapy Planning ◽  
Tumor Segmentation ◽  
Mr Images ◽  
Brain Tumor Segmentation ◽  
Processing Step

The automatic segmentation of brain tumors in magnetic resonance (MR) images is very important in the diagnosis, radiotherapy planning, surgical navigation and several other clinical processes. As the location, size, shape, boundary of gliomas are heterogeneous, segmenting gliomas and intratumoral structures is very difficult. Besides, the multi-center issue makes it more challenging that multimodal brain gliomas images (such as T1, T2, fluid-attenuated inversion recovery (FLAIR), and T1c images) are from different radiation centers. This paper presents a multimodal, multi-scale, double-pathway, 3D residual convolution neural network (CNN) for automatic gliomas segmentation. In the pre-processing step, a robust gray-level normalization method is proposed to solve the multi-center problem, that the intensity range from deferent centers varies a lot. Then, a doublepathway 3D architecture based on DeepMedic toolkit is trained using multi-modality information to fuse the local and context features. In the post-processing step, a fully connected conditional random field (CRF) is built to improve the performance, filling and connecting the isolated segmentations and holes. Experiments on the Multimodal Brain Tumor Segmentation (BRATS) 2017 and 2019 dataset showed that this methods can delineate the whole tumor with a Dice coefficient, a sensitivity and a positive predictive value (PPV) of 0.88, 0.89 and 0.88, respectively. As for the segmentation of the tumor core and the enhancing area, the sensitivity reached 0.80. The results indicated that this method can segment gliomas and intratumoral structures from multimodal MR images accurately, and it possesses a clinical practice value.

scholarly journals A Survey and Analysis on Automated Glioma Brain Tumor Segmentation and Overall Patient Survival Prediction

2021 ◽  
Author(s):  
Rupal Agravat ◽  
Mehul Raval
Keyword(s):  
Overall Survival ◽  
Brain Tumor ◽  
Automatic Segmentation ◽  
High Volume ◽  
Physical Symptoms ◽  
Tumor Segmentation ◽  
Survival Prediction ◽  
Neural Network Models ◽  
Brain Tumor Segmentation ◽  
Overall Survival Prediction

<div>Glioma is the most deadly brain tumor with high mortality. Treatment planning by human experts depends on the proper diagnosis of physical symptoms along with Magnetic Resonance(MR) image analysis. Highly variability of a brain tumor in terms of size, shape, location, and a high volume of MR images makes the analysis time-consuming. Automatic segmentation methods achieve a reduction in time with excellent reproducible results.</div><div>The article aims to survey the advancement of automated methods for Glioma brain tumor segmentation. It is also essential to make an objective evaluation of various models based on the benchmark. Therefore, the 2012 - 2019 BraTS challenges database evaluates state-of-the-art methods. The complexity of tasks under the challenge has grown from segmentation (Task1) to overall survival prediction (Task 2) to uncertainty prediction for classification (Task 3). The paper covers the complete gamut of brain tumor segmentation using handcrafted features to deep neural network models for Task 1. The aim is to showcase a complete change of trends in automated brain tumor models. The paper also covers end to end joint models involving brain tumor segmentation and overall survival prediction. All the methods are probed, and parameters that affect performance are tabulated and analyzed.</div>

scholarly journals Deep Weber Dominant Local Order Based Feature Generator and Improved Convolution Neural Network for Brain Tumor Segmentation in MR Images

2020 ◽  
Vol 9 (3) ◽  
pp. 3150-3157
Keyword(s):  
Neural Network ◽  
Feature Extraction ◽  
Brain Tumor ◽  
Median Filter ◽  
Histogram Equalization ◽  
Convolution Neural Network ◽  
Tumor Segmentation ◽  
Local Order ◽  
Dice Similarity Coefficient ◽  
Brain Tumor Segmentation

This paper introduces a scheme for retrieving deep features to carry out the procedure of recognising brain tumors from MR image. Initially, the MR brain image is denoised through the Modified Decision Based Unsymmetric Trimmed Median Filter (MDBUTMF) after that the contrast of the image is improved through Contrast Limited Adaptive Histogram Equalization (CLAHE). Once the pre-processing task is completed, the next phase is to extract the feature. In order to acquire the features of pre-processed images, this article offers a feature extraction technique named Deep Weber Dominant Local Order Based Feature Generator (DWDLOBFG). Once the deep features are retrieved, the next stage is to separate the brain tumor. Improved Convolution Neural Network (ICNN) is used to achieve this procedure. To explore the efficiency of deep feature extraction and in-depth machine learning methods, four performance indicators were used: Sensitivity (SEN), Jaccard Index (JI), Dice Similarity Coefficient (DSC) and Positive Predictive Value (PPV). The investigational outputs illustrated that the DWDLOBFG and ICNN achieve best outputs than existing techniques.

Automatic MRI Brain Tumor Segmentation System Based on Localizing Active Contour Models

2011 ◽  
Vol 219-220 ◽  
pp. 1342-1346 ◽  
Author(s):  
Ying Wang ◽  
Zhi Xian Lin ◽  
Jian Guo Cao ◽  
Mao Qing Li
Keyword(s):  
Brain Tumor ◽  
Active Contour ◽  
Automatic Segmentation ◽  
Brain Mri ◽  
Initial Contour ◽  
Tumor Segmentation ◽  
Brain Tumor Segmentation ◽  
Active Contour Models ◽  
Mri Brain ◽  
Contour Models

In this paper, an automatic segmentation system was developed for MRI brain tumor. Local region-based active contour models were suitable for heterogeneous features of brain MRI image. But the models are sensitive to initial contour, which generally requires manual setting. An automatic MRI brain tumor segmentation system were developed based on localized contour models, which can identify tumor-dominant slice, set initial contour automatically and segment tumor’s contours from all MRI slices autonomously. K-means clustering and grayscale analysis were combined to identify tumor-dominant slice. Multi-threshold algorithm with the aid of erosion and dilation operators was adopted to obtain an initial contour for the tumor-dominant slice. The segmentation contour from the local active contour models was applied as initial contours of two-side neighboring slices. MRI brain tumor data were applied to validate the automatic segmentation system.

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