基于深度布朗距离协方差的Cryo-ET亚体的少射分类。

IF 6.8 2区 生物学 Q1 BIOCHEMICAL RESEARCH METHODS Briefings in bioinformatics Pub Date : 2024-11-22 DOI:10.1093/bib/bbae643
Xueshi Yu, Renmin Han, Haitao Jiao, Wenjia Meng
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引用次数: 0

摘要

Few-shot学习是低温电子断层扫描(Cryo-ET)亚体积大分子分类的关键方法,可以在少量标记数据的支持下快速适应新任务。然而,现有的Cryo-ET中大分子的少射分类方法只考虑边缘分布,忽略了联合分布,未能充分捕捉特征依赖关系。为了解决这一问题,我们提出了一种基于深度布朗距离协方差(BDC)的大分子少弹分类方法。我们的方法在迁移学习框架内对联合分布进行建模,提高了建模能力。我们在特征提取器之后插入BDC模块,并且在训练阶段只训练特征提取器。然后,利用自蒸馏技术增强模型的泛化能力。在适应阶段,我们用最小的标记数据对分类器进行微调。我们在公开可用的SHREC数据集和一个小规模的合成数据集上进行实验来评估我们的方法。结果表明,该方法通过引入联合分布提高了分类能力。
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Few-shot classification of Cryo-ET subvolumes with deep Brownian distance covariance.

Few-shot learning is a crucial approach for macromolecule classification of the cryo-electron tomography (Cryo-ET) subvolumes, enabling rapid adaptation to novel tasks with a small support set of labeled data. However, existing few-shot classification methods for macromolecules in Cryo-ET consider only marginal distributions and overlook joint distributions, failing to capture feature dependencies fully. To address this issue, we propose a method for macromolecular few-shot classification using deep Brownian Distance Covariance (BDC). Our method models the joint distribution within a transfer learning framework, enhancing the modeling capabilities. We insert the BDC module after the feature extractor and only train the feature extractor during the training phase. Then, we enhance the model's generalization capability with self-distillation techniques. In the adaptation phase, we fine-tune the classifier with minimal labeled data. We conduct experiments on publicly available SHREC datasets and a small-scale synthetic dataset to evaluate our method. Results show that our method improves the classification capabilities by introducing the joint distribution.

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来源期刊
Briefings in bioinformatics
Briefings in bioinformatics 生物-生化研究方法
CiteScore
13.20
自引率
13.70%
发文量
549
审稿时长
6 months
期刊介绍: Briefings in Bioinformatics is an international journal serving as a platform for researchers and educators in the life sciences. It also appeals to mathematicians, statisticians, and computer scientists applying their expertise to biological challenges. The journal focuses on reviews tailored for users of databases and analytical tools in contemporary genetics, molecular and systems biology. It stands out by offering practical assistance and guidance to non-specialists in computerized methodologies. Covering a wide range from introductory concepts to specific protocols and analyses, the papers address bacterial, plant, fungal, animal, and human data. The journal's detailed subject areas include genetic studies of phenotypes and genotypes, mapping, DNA sequencing, expression profiling, gene expression studies, microarrays, alignment methods, protein profiles and HMMs, lipids, metabolic and signaling pathways, structure determination and function prediction, phylogenetic studies, and education and training.
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