Predicting the functions of a given protein presents a substantial hurdle in the realm of bioinformatics. Employing protein sequences, protein structures, protein-protein interaction networks, and micro-array data representations as protein data forms is key to predicting functions. High-throughput protein sequencing techniques have yielded an abundance of protein sequence data over the past few decades, making these sequences prime targets for deep-learning-based function prediction. A considerable array of advanced techniques has been put forward up until now. For a systematic and chronological understanding of the techniques displayed in all of these works, a survey is indispensable. In this survey, the latest methodologies for protein function prediction, including their advantages, disadvantages, and predictive accuracy, are presented, along with a new direction for interpretability of the necessary predictive models.
Endangering both the health of the female reproductive system and potentially a woman's life, cervical cancer is a serious threat. For non-invasive, real-time, high-resolution imaging of cervical tissues, optical coherence tomography (OCT) is utilized. Despite the importance of interpreting cervical OCT images, the knowledge-intensive and time-consuming nature of this task makes acquiring a considerable amount of high-quality labeled data a significant hurdle for supervised learning algorithms. In this study, we incorporate the vision Transformer (ViT) architecture, which has achieved significant progress in natural image analysis, for the purpose of cervical OCT image classification. Our effort centers on developing a self-supervised ViT-based CADx method for the efficient classification of cervical OCT images. Our proposed classification model benefits from improved transfer learning due to the use of masked autoencoders (MAE) for self-supervised pre-training on cervical OCT image data. The fine-tuning procedure of the ViT-based classification model entails extracting multi-scale features from OCT images with differing resolutions, followed by their fusion with the cross-attention module. In a clinical study of 733 patients across multiple centers in China, utilizing OCT images, our model demonstrated superior performance in detecting high-risk cervical diseases, including HSIL and cervical cancer. Ten-fold cross-validation resulted in an AUC value of 0.9963 ± 0.00069, outperforming existing Transformer and CNN models. This was achieved with a sensitivity of 95.89 ± 3.30% and specificity of 98.23 ± 1.36% in the binary classification task. The cross-shaped voting strategy employed in our model yielded a sensitivity of 92.06% and specificity of 95.56% on a test set of 288 three-dimensional (3D) OCT volumes from 118 Chinese patients at a different, new hospital. Compared to the average assessment of four medical professionals who have used OCT for over a year, this outcome was equal to or better than the average. In conjunction with its impressive classification accuracy, our model exhibits a significant capacity to detect and display local lesions using the standard ViT model's attention map. This facilitates excellent interpretability for gynecologists in locating and diagnosing possible cervical pathologies.
Of all cancer deaths among women worldwide, roughly 15% are attributed to breast cancer; early and precise diagnosis critically impacts survival. Temozolomide chemical structure In recent decades, numerous machine learning methods have been employed to enhance the diagnostic process for this ailment, though many necessitate a substantial training dataset. Rarely seen in this setting were syntactic approaches, however, they can provide good results even with a small quantity of training data. This article's syntactic method is geared toward categorizing masses as either benign or malignant. A stochastic grammar approach, combined with features from a polygonal representation of mammographic masses, was utilized to discriminate the masses. The results of the classification task indicated a superior performance by grammar-based classifiers, when compared to alternative machine learning techniques. Grammatical approaches demonstrated impressive accuracy, fluctuating between 96% and 100%, showcasing their capacity to differentiate diverse instances despite training on small image collections. Syntactic approaches to mass classification can be employed more frequently, allowing for the learning of benign and malignant mass patterns from small image datasets, while maintaining performance comparable to existing cutting-edge approaches.
Pneumonia's global impact on mortality is substantial and pervasive, affecting many lives. Pneumonia detection in chest X-rays can be aided by deep learning algorithms. However, the existing techniques are not sufficiently thorough in recognizing the expansive range of variations and the unclear boundaries of pneumonia. This work proposes a deep learning approach, specifically leveraging Retinanet, for pneumonia identification. Pneumonia's multi-scale features are accessed by incorporating Res2Net into the Retinanet model. Our novel Fuzzy Non-Maximum Suppression (FNMS) algorithm fuses overlapping detection boxes, resulting in a more robust predicted box. The final performance achieved demonstrates superiority over existing methods by incorporating two models with unique architectural designs. Our experimentation yields results for both the single model and the collection of models. In the single-model paradigm, the RetinaNet network, with the FNMS algorithm and Res2Net backbone, achieves superior results than the standard RetinaNet and other models. The FNMS algorithm, when applied to fused predicted boxes within a model ensemble, achieves a superior final score compared to alternative fusion methods such as NMS, Soft-NMS, and weighted boxes fusion. Testing the FNMS algorithm and the proposed method on a pneumonia detection dataset showcased their superior performance in the pneumonia detection task.
The examination of heart sounds is crucial for the early diagnosis of heart conditions. accident & emergency medicine However, the task of manually identifying these issues demands physicians with substantial practical experience, adding to the uncertainty of the process, especially in underserved medical communities. This paper presents a sturdy neural network architecture, featuring an enhanced attention mechanism, for the automatic categorization of cardiac sound waves. During the preprocessing stage, noise is mitigated using a Butterworth bandpass filter, and subsequently, the heart sound recordings are transformed into a time-frequency representation by employing the short-time Fourier transform (STFT). The model's actions are influenced by the STFT spectrum's characteristics. Four down-sampling blocks, each employing unique filters, automatically extract features. Following this, a refined attention mechanism, incorporating elements from both the Squeeze-and-Excitation and coordinate attention modules, is designed for the purpose of feature amalgamation. Finally, the neural network will determine a category for heart sound waves, employing the features it has learned. To mitigate overfitting and reduce model weights, a global average pooling layer is employed, supplemented by focal loss as a loss function to address data imbalance. Our method's effectiveness and advantages were conclusively demonstrated in validation experiments, which used two publicly accessible datasets.
The brain-computer interface (BCI) system requires an urgently needed decoding model capable of efficiently managing subject and temporal variations for practical application. The effectiveness of most electroencephalogram (EEG) decoding models is dictated by the unique features of individual subjects and particular timeframes, demanding pre-application calibration and training using annotated data. However, this scenario will reach an unacceptable level as prolonged data collection by subjects will prove problematic, especially within the rehabilitation frameworks predicated on motor imagery (MI) for disabilities. For tackling this issue, we developed an iterative self-training multi-subject domain adaptation framework, ISMDA, which centers on the offline Mutual Information (MI) task. For the purpose of creating a latent space of distinctive representations, the feature extractor is designed to map the EEG signal. Dynamic transfer is implemented within the attention module, fostering a stronger alignment between source and target domain samples and achieving a greater degree of correspondence in the latent space. A dedicated, independent classifier, focused on the target domain, is incorporated into the initial stage of the iterative training, clustering target domain examples via similarity. immune factor Employing a pseudolabeling algorithm grounded in certainty and confidence metrics, the second stage of iterative training precisely adjusts for errors between predicted and observed probabilities. Evaluating the model's efficiency involved extensive testing on three public datasets: BCI IV IIa, the High Gamma dataset, and Kwon et al.'s data. In cross-subject classification, the proposed method's performance on the three datasets displayed superior accuracy—6951%, 8238%, and 9098%, respectively—outperforming current offline algorithms. Meanwhile, the proposed method was shown to effectively tackle the key obstacles within the offline MI paradigm, as all results indicated.
The assessment of fetal development is crucial for providing comprehensive healthcare to both mothers and their unborn children. The presence of conditions increasing the risk of fetal growth restriction (FGR) is remarkably higher in low- and middle-income countries. The impediments to accessing healthcare and social services in these regions dramatically increase the severity of fetal and maternal health problems. A drawback is the lack of accessible and inexpensive diagnostic technology. To tackle this problem, this study presents a complete algorithm, employed on an affordable, handheld Doppler ultrasound device, for calculating gestational age (GA) and, consequently, fetal growth restriction (FGR).
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