鉴定抗微生物肽的靶标是研究先天免疫反应和打击抗生素抗性的基本步骤,更广泛,精确的药物和公共卫生。关于鉴定(I)肽是抗微生物肽(AMP)的统计和计算方法是否有广泛的研究,或者是哪种靶向这些序列(克阳性,革兰氏阴性)的靶序列, 等等。)。尽管存在对此问题的深度学习方法,但大多数都无法处理小型AMP类(抗昆虫,抗寄生虫等)。更重要的是,一些AMP可以有多个目标,前面的方法无法考虑。在这项研究中,我们通过从各种AMP数据库收集和清洁氨基酸来构建多样化和综合的多标签蛋白序列数据库。为了为小类数据集产生有效的表示和特征,我们利用培训的蛋白质语言模型,培训了超过2.5亿蛋白序列。基于此,我们开发了一个端到端的分层多标签深森林框架,HMD-AMP,全面注释放大器。在识别AMP之后,它进一步预测了AMP可以从11个可用类中有效杀死的目标。广泛的实验表明,我们的框架在二进制分类任务和多标签分类任务中占据了最先进的模型,尤其是在次要类上。模型对抗特征和小扰动并产生有前途的结果。我们认为HMD-AMP对不同抗微生物肽的未来湿式实验室调查有助于不同抗菌肽的先天结构性质,并为抗生素进行精确药物构建有前途的实证内衬。
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蛋白质RNA相互作用对各种细胞活性至关重要。已经开发出实验和计算技术来研究相互作用。由于先前数据库的限制,尤其是缺乏蛋白质结构数据,大多数现有的计算方法严重依赖于序列数据,只有一小部分使用结构信息。最近,alphafold彻底改变了整个蛋白质和生物领域。可预应学,在即将到来的年份,也将显着促进蛋白质-RNA相互作用预测。在这项工作中,我们对该字段进行了彻底的审查,调查绑定站点和绑定偏好预测问题,并覆盖常用的数据集,功能和模型。我们还指出了这一领域的潜在挑战和机遇。本调查总结了过去的RBP-RNA互动领域的发展,并预见到了alphafold时代未来的发展。
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Model bias triggered by long-tailed data has been widely studied. However, measure based on the number of samples cannot explicate three phenomena simultaneously: (1) Given enough data, the classification performance gain is marginal with additional samples. (2) Classification performance decays precipitously as the number of training samples decreases when there is insufficient data. (3) Model trained on sample-balanced datasets still has different biases for different classes. In this work, we define and quantify the semantic scale of classes, which is used to measure the feature diversity of classes. It is exciting to find experimentally that there is a marginal effect of semantic scale, which perfectly describes the first two phenomena. Further, the quantitative measurement of semantic scale imbalance is proposed, which can accurately reflect model bias on multiple datasets, even on sample-balanced data, revealing a novel perspective for the study of class imbalance. Due to the prevalence of semantic scale imbalance, we propose semantic-scale-balanced learning, including a general loss improvement scheme and a dynamic re-weighting training framework that overcomes the challenge of calculating semantic scales in real-time during iterations. Comprehensive experiments show that dynamic semantic-scale-balanced learning consistently enables the model to perform superiorly on large-scale long-tailed and non-long-tailed natural and medical datasets, which is a good starting point for mitigating the prevalent but unnoticed model bias.
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Spatio-temporal machine learning is critically needed for a variety of societal applications, such as agricultural monitoring, hydrological forecast, and traffic management. These applications greatly rely on regional features that characterize spatial and temporal differences. However, spatio-temporal data are often complex and pose several unique challenges for machine learning models: 1) multiple models are needed to handle region-based data patterns that have significant spatial heterogeneity across different locations; 2) local models trained on region-specific data have limited ability to adapt to other regions that have large diversity and abnormality; 3) spatial and temporal variations entangle data complexity that requires more robust and adaptive models; 4) limited spatial-temporal data in real scenarios (e.g., crop yield data is collected only once a year) makes the problems intrinsically challenging. To bridge these gaps, we propose task-adaptive formulations and a model-agnostic meta-learning framework that ensembles regionally heterogeneous data into location-sensitive meta tasks. We conduct task adaptation following an easy-to-hard task hierarchy in which different meta models are adapted to tasks of different difficulty levels. One major advantage of our proposed method is that it improves the model adaptation to a large number of heterogeneous tasks. It also enhances the model generalization by automatically adapting the meta model of the corresponding difficulty level to any new tasks. We demonstrate the superiority of our proposed framework over a diverse set of baselines and state-of-the-art meta-learning frameworks. Our extensive experiments on real crop yield data show the effectiveness of the proposed method in handling spatial-related heterogeneous tasks in real societal applications.
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A common scenario of Multilingual Neural Machine Translation (MNMT) is that each translation task arrives in a sequential manner, and the training data of previous tasks is unavailable. In this scenario, the current methods suffer heavily from catastrophic forgetting (CF). To alleviate the CF, we investigate knowledge distillation based life-long learning methods. Specifically, in one-tomany scenario, we propose a multilingual distillation method to make the new model (student) jointly learn multilingual output from old model (teacher) and new task. In many-to one scenario, we find that direct distillation faces the extreme partial distillation problem, and we propose two different methods to address it: pseudo input distillation and reverse teacher distillation. The experimental results on twelve translation tasks show that the proposed methods can better consolidate the previous knowledge and sharply alleviate the CF.
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In recent years, deep-learning-based approaches have been introduced to solving time-series forecasting-related problems. These novel methods have demonstrated impressive performance in univariate and low-dimensional multivariate time-series forecasting tasks. However, when these novel methods are used to handle high-dimensional multivariate forecasting problems, their performance is highly restricted by a practical training time and a reasonable GPU memory configuration. In this paper, inspired by a change of basis in the Hilbert space, we propose a flexible data feature extraction technique that excels in high-dimensional multivariate forecasting tasks. Our approach was originally developed for the National Science Foundation (NSF) Algorithms for Threat Detection (ATD) 2022 Challenge. Implemented using the attention mechanism and Convolutional Neural Networks (CNN) architecture, our method demonstrates great performance and compatibility. Our models trained on the GDELT Dataset finished 1st and 2nd places in the ATD sprint series and hold promise for other datasets for time series forecasting.
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This paper provides an introductory survey to GPT-3. We cover some of the historical development behind this technology, some of the key features of GPT-3, and discuss the machine learning model and the datasets used. We survey both academic and commercial efforts applying GPT-3 in diverse domains such as developing conversational AI chatbots, software development, creative work, domain knowledge, and business productivity. We discuss some of the challenges that GPT-3 faces such as the problems of training complexity, bias, and hallucination/incorrect answers. We also discuss the future research opportunities in this area.
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Image super-resolution is a common task on mobile and IoT devices, where one often needs to upscale and enhance low-resolution images and video frames. While numerous solutions have been proposed for this problem in the past, they are usually not compatible with low-power mobile NPUs having many computational and memory constraints. In this Mobile AI challenge, we address this problem and propose the participants to design an efficient quantized image super-resolution solution that can demonstrate a real-time performance on mobile NPUs. The participants were provided with the DIV2K dataset and trained INT8 models to do a high-quality 3X image upscaling. The runtime of all models was evaluated on the Synaptics VS680 Smart Home board with a dedicated edge NPU capable of accelerating quantized neural networks. All proposed solutions are fully compatible with the above NPU, demonstrating an up to 60 FPS rate when reconstructing Full HD resolution images. A detailed description of all models developed in the challenge is provided in this paper.
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Batch Normalization (BN) is an important preprocessing step to many deep learning applications. Since it is a data-dependent process, for some homogeneous datasets it is a redundant or even a performance-degrading process. In this paper, we propose an early-stage feasibility assessment method for estimating the benefits of applying BN on the given data batches. The proposed method uses a novel threshold-based approach to classify the training data batches into two sets according to their need for normalization. The need for normalization is decided based on the feature heterogeneity of the considered batch. The proposed approach is a pre-training processing, which implies no training overhead. The evaluation results show that the proposed approach achieves better performance mostly in small batch sizes than the traditional BN using MNIST, Fashion-MNIST, CIFAR-10, and CIFAR-100 datasets. Additionally, the network stability is increased by reducing the occurrence of internal variable transformation.
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在本文中,我们提出了一个称为SDFE-LV的大规模,多源和不受约束的数据库,用于发现长视频中完整动态面部表达的发作和偏移帧,这被称为动态面部表情斑点的主题(DFE)和许多面部表达分析任务的重要步骤。具体而言,SDFE-LV由1,191个长视频组成,每个视频包含一个或多个完整的动态面部表情。此外,在相应的长视频中,每个完整的动态面部表达都被10次训练有素的注释者独立标记了五次。据我们所知,SDFE-LV是DFES任务的第一个无限制的大规模数据库,其长期视频是从多个现实世界/密切现实世界中的媒体来源收集的,例如电视采访,纪录片,电影和电影,以及我们媒体短视频。因此,在实践中,SDFE-LV数据库上的DFE任务将遇到许多困难,例如头部姿势变化,遮挡和照明。我们还通过使用许多最新的深度发现方法,从不同角度提供了全面的基准评估,因此对DFE感兴趣的研究人员可以快速而轻松地开始。最后,通过有关实验评估结果的深入讨论,我们试图指出几个有意义的方向来处理DFES任务,并希望将来DFE可以更好地进步。此外,SDFE-LV将仅尽快自由发布供学术使用。
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