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Applications of Deep Neural Networks with Fractal Structure and Attention Blocks for 2D and 3D Brain Tumor Segmentation.

J Stat Theory Pract

September 2024

Statistics Online Computational Resource, University of Michigan, 426 North Ingalls Str, Ann Arbor, Michigan 48109-2003.

In this paper, we propose a novel deep neural network (DNN) architecture with fractal structure and attention blocks. The new method is tested to identify and segment 2D and 3D brain tumor masks in normal and pathological neuroimaging data. To circumvent the problem of limited 3D volumetric datasets with raw and ground truth tumor masks, we utilized data augmentation using affine transformations to significantly expand the training data prior to estimating the network model parameters.

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There is an increasing interest in environmental DNA (eDNA) as a method to survey marine biota, enhancing traditional survey methods, and a need to ground truth eDNA-based interpretations with visual surveys to understand biases in both the eDNA and visual datasets. We designed and tested a rapidly deployable, robust method pairing water sampling for eDNA collection and stereo-video imagery, comparing inferred fish assemblages with interspersed baited remote underwater video (stereo-BRUV) samples. The system is capable of rapidly collecting simultaneous wide-field stereo-video imagery, oceanographic measurements and multiple water samples across a range of habitats and depths (up to 600 m).

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Background: The research aimed to collect experience and viewpoints related to the nutrition management of patients with digestive tract cancers from medical care staff, patients, and family caregivers and provide reasonable and effective references for the mode of nutrition management of these patients.

Methods: Using a phenomenological qualitative research method, six physicians, six nurses, three nutritionists, six patients, and six family caregivers from a tertiary A cancer hospital in Jiangsu Province were chosen by purposive sampling methods from February to June 2023. Data was collected through semi-structured in-depth interviews and analyzed by the content analysis method.

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Systematic evaluation of methylation-based cell type deconvolution methods for plasma cell-free DNA.

Genome Biol

December 2024

School of Basic Medical Sciences, Suzhou Medical College, Soochow University, Suzhou, 215123, China.

Background: Plasma cell-free DNA (cfDNA) is derived from cellular death in various tissues. Investigating the tissue origin of cfDNA through cell type deconvolution, we can detect changes in tissue homeostasis that occur during disease progression or in response to treatment. Consequently, cfDNA has emerged as a valuable noninvasive biomarker for disease detection and treatment monitoring.

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This paper presents a novel method to enhance ground truth disparity maps generated by Semi-Global Matching (SGM) using Maximum a Posteriori (MAP) estimation. SGM, while not producing visually appealing outputs like neural networks, offers high disparity accuracy in valid regions and avoids the generalization issues often encountered with neural network-based disparity estimation. However, SGM struggles with occlusions and textureless areas, leading to invalid disparity values.

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