Browsing by Author "He, Chuan"
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Item Open Access Exploring the brain epitranscriptome: perspectives from the NSAS summit.(Frontiers in neuroscience, 2023-01) Lee, Sung-Min; Koo, Bonsang; Carré, Clément; Fischer, André; He, Chuan; Kumar, Ajeet; Liu, Kathy; Meyer, Kate D; Ming, Guo-Li; Peng, Junmin; Roignant, Jean-Yves; Storkebaum, Erik; Sun, Shuying; De Pietri Tonelli, Davide; Wang, Yinsheng; Weng, Yi-Lan; Pulvirenti, Luigi; Shi, Yanhong; Yoon, Ki-Jun; Song, HongjunIncreasing evidence reinforces the essential function of RNA modifications in development and diseases, especially in the nervous system. RNA modifications impact various processes in the brain, including neurodevelopment, neurogenesis, neuroplasticity, learning and memory, neural regeneration, neurodegeneration, and brain tumorigenesis, leading to the emergence of a new field termed neuroepitranscriptomics. Deficiency in machineries modulating RNA modifications has been implicated in a range of brain disorders from microcephaly, intellectual disability, seizures, and psychiatric disorders to brain cancers such as glioblastoma. The inaugural NSAS Challenge Workshop on Brain Epitranscriptomics hosted in Crans-Montana, Switzerland in 2023 assembled a group of experts from the field, to discuss the current state of the field and provide novel translational perspectives. A summary of the discussions at the workshop is presented here to simulate broader engagement from the general neuroscience field.Item Open Access Prediction of Electron Cutout Factors Using Residual Neural Network(2019) He, ChuanAbstract
Background: Monte Carlo and square root are two commonly used calculation methods to predict electron cutout factors in clinic. Monte Carlo is accurate but time consuming, while square root is faster but less accurate for cutouts with highly irregular shapes.
Purpose: Simplify and develop an efficient residual neural network model to predict electron cutout factors accurately and instantly.
Methods: 281 clinical cutouts were screened, and 12 groups were designed combining four different electron energies (6, 9, 12 and 15 MeV) and three different cones (10, 14 and 20 cm). The cutout factors of 35 previously used electron cutouts were calculated by Monte Carlo simulation and also measured with a solid water phantom and an ion chamber for validation of Monte Carlo accuracy. To solve the issue of sparse training data, 600 cutout samples were created for each group based on modifications of previously screened clinical cutouts. Cutout factors of these 600 samples were calculated with Monte Carlo simulation. 400 samples were randomly selected as training data, 50 as validating and the remaining 150 as testing. 1D Distance histograms were calculated as model input instead of 2D images to accelerate the training process. 1D Residual neural network with four residual blocks and three linear blocks was used. Performance of the trained model was evaluated with testing data, and the accuracy of the model was compared with square root method for eight selected cutouts with highly irregular shapes.
Results: The Monte Carlo calculated cutout factor agreed with the measurement within 0.7±0.5% on average. During the training process, the model started to converge within 20 epochs with 30 seconds. For model prediction, mean errors and maximum discrepancies for each energy and cone combinations were all within 1%, and the average overall error was 0.2±0.16%. Compared to square root method, the trained model performed better for cutouts with highly irregular shapes.
Conclusion: An efficient residual neural network model was simplified and developed, which is capable of estimating electron cutout factors accurately and instantly.