2020
DOI: 10.3389/fnins.2020.610239
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RatLesNetv2: A Fully Convolutional Network for Rodent Brain Lesion Segmentation

Abstract: We present a fully convolutional neural network (ConvNet), named RatLesNetv2, for segmenting lesions in rodent magnetic resonance (MR) brain images. RatLesNetv2 architecture resembles an autoencoder and it incorporates residual blocks that facilitate its optimization. RatLesNetv2 is trained end to end on three-dimensional images and it requires no preprocessing. We evaluated RatLesNetv2 on an exceptionally large dataset composed of 916 T2-weighted rat brain MRI scans of 671 rats at nine different lesion stages… Show more

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Cited by 22 publications
(34 citation statements)
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References 34 publications
(48 reference statements)
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“…where CS = 1 indicates an identical compactness, and lower values indicate the two regions display a different ratio between surface and volume. To calculate the compactness, we used code from ( 27 ).…”
Section: Methodsmentioning
confidence: 99%
See 1 more Smart Citation
“…where CS = 1 indicates an identical compactness, and lower values indicate the two regions display a different ratio between surface and volume. To calculate the compactness, we used code from ( 27 ).…”
Section: Methodsmentioning
confidence: 99%
“…Alternative approaches include work based on image-to-image translation ( 23 ) or mixed-scale architectures ( 24 ). For murine MRI, neural networks have been proposed for skull-stripping ( 25 , 26 ), lesion segmentation ( 27 , 28 ), and region segmentation ( 29 ). However, to our knowledge, CNNs have not been applied to the task of anatomical region segmentation of MRI of lesioned murine brains.…”
Section: Introductionmentioning
confidence: 99%
“…Due to new emerging opportunities, artifi-*tatarkanov@ikti.ru cial NNs have become in high demand in recent years to analyze complex structured images resulting from medical imaging [15][16][17][18]42]. A prime example of a successful application of NNs is the RatLesNetv2 model [19]. The "RatLesNetv2" model is a convolutional neural network that highlights the area of brain damage on a tomographic image.…”
Section: Introductionmentioning
confidence: 99%
“…An important condition of any specialized development is the need to adapt it to specific regional standards and for it to work with the equipment and data formats used by the organization. The relevance of the present work on the automation of ocular diagnostics of fundus pathologies is due to [19] the need to develop domestic medical decision-making systems [21]- [24].The aim of the work is to increase the efficiency of ocular diagnostics of fundus pathologies, to reduce the burden on specialists, and to reduce negative human-factor impacts when making diagnoses by creating and using automated hybrid NN structures for intelligent segmentation of complex structured medical retinal images. The object of the research is an algorithm for noninvasive diagnostics of ocular fundus pathologies based on retinal images obtained by medical imaging techniques.…”
Section: Introductionmentioning
confidence: 99%
“…Accurate segmentation is crucial to measure, for instance, brain tumor size, which can determine the radiation dose administered to patients during radiotherapy [1]. Since segmenting images manually is time consuming and subjective [2,3,4], there is a great interest in developing reliable tools to segment medical images automatically.…”
Section: Introductionmentioning
confidence: 99%