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Rodent stroke models are important for evaluating treatments and understanding the pathophysiology and behavioral changes of brain ischemia, and magnetic resonance imaging (MRI) is a valuable tool for measuring outcome in preclinical…
Medical images used in clinical practice are heterogeneous and not the same quality as scans studied in academic research. Preprocessing breaks down in extreme cases when anatomy, artifacts, or imaging parameters are unusual or protocols…
Brain segmentation is a fundamental first step in neuroimage analysis. In the case of fetal MRI, it is particularly challenging and important due to the arbitrary orientation of the fetus, organs that surround the fetal head, and…
Skull stripping magnetic resonance images (MRI) of the human brain is an important process in many image processing techniques, such as automatic segmentation of brain structures. Numerous methods have been developed to perform this task,…
Manual segmentation of rodent brain lesions from magnetic resonance images (MRIs) is an arduous, time-consuming and subjective task that is highly important in pre-clinical research. Several automatic methods have been developed for…
Brain extraction is a fundamental step for most brain imaging studies. In this paper, we investigate the problem of skull stripping and propose complementary segmentation networks (CompNets) to accurately extract the brain from T1-weighted…
Deep learning models usually require sufficient training data to achieve high accuracy, but obtaining labeled data can be time-consuming and labor-intensive. Here we introduce a template-based training method to train a 3D U-Net model from…
Segmentation of brain structures on MRI is the primary step for further quantitative analysis of brain diseases. Manual segmentation is still considered the gold standard in terms of accuracy; however, such data is extremely time-consuming…
Brain extraction (skull stripping) is a challenging problem in neuroimaging. It is due to the variability in conditions from data acquisition or abnormalities in images, making brain morphology and intensity characteristics changeable and…
Skull stripping for brain MR images is a basic segmentation task. Although many methods have been proposed, most of them focused mainly on the adult MR images. Skull stripping for infant MR images is more challenging due to the small size…
Skull-stripping methods aim to remove the non-brain tissue from acquisition of brain scans in magnetic resonance (MR) imaging. Although several methods sharing this common purpose have been presented in literature, they all suffer from the…
Whole brain extraction, also known as skull stripping, is a process in neuroimaging in which non-brain tissue such as skull, eyeballs, skin, etc. are removed from neuroimages. Skull striping is a preliminary step in presurgical planning,…
Segmentation has been a major task in neuroimaging. A large number of automated methods have been developed for segmenting healthy and diseased brain tissues. In recent years, deep learning techniques have attracted a lot of attention as a…
Brain extraction and removal of skull artifacts from magnetic resonance images (MRI) is an important preprocessing step in neuroimaging analysis. There are many tools developed to handle human fMRI images, which could involve manual steps…
Brain extraction in magnetic resonance imaging (MRI) data is an important segmentation step in many neuroimaging preprocessing pipelines. Image segmentation is one of the research fields in which deep learning had the biggest impact in…
Skull stripping is a common preprocessing step that is often performed manually in Magnetic Resonance Imaging (MRI) pipelines, including functional MRI (fMRI). This manual process is time-consuming and operator dependent. Automating this…
A brain tumor, whether benign or malignant, can potentially be life threatening and requires painstaking efforts in order to identify the type, origin and location, let alone cure one. Manual segmentation by medical specialists can be…
Fetal brain extraction is a necessary first step in most computational fetal brain MRI pipelines. However, it has been a very challenging task due to non-standard fetal head pose, fetal movements during examination, and vastly heterogeneous…
Automated brain tissue segmentation into white matter (WM), gray matter (GM), and cerebro-spinal fluid (CSF) from magnetic resonance images (MRI) is helpful in the diagnosis of neuro-disorders such as epilepsy, Alzheimer's, multiple…
Segmentation is one of the most important tasks in MRI medical image analysis and is often the first and the most critical step in many clinical applications. In brain MRI analysis, head segmentation is commonly used for measuring and…