用混沌镜像图将蛋白序列转为图像,辅助识别抗癌T细胞受体。
DANCE: Deep Learning-Assisted Analysis of Protein Sequences Using Chaos Enhanced Kaleidoscopic Images
- 通过混沌游戏生成镜像图像,将短序列蛋白转为视觉模式。
- 利用深度学习模型对癌症相关T细胞受体分类,准确率达92.3%。
- 适合生物信息学与医学影像交叉研究者阅读。
癌症是一种以细胞失控增殖为特征的复杂疾病。T细胞受体(TCRs)是免疫系统中识别抗原(包括癌变相关抗原)的关键蛋白。近年来测序技术的发展推动了TCR库的全面解析,发现了具有强抗癌活性的TCRs,为基于TCR的免疫疗法提供了可能。然而,分析这些复杂分子需要高效表征方法以保留其结构与功能信息。由于T细胞蛋白序列相对较短,传统方法受限,基于图像的表示成为更优选择,能有效保留关键细节并支持全面分析。本文提出一种名为DANCE的方法——利用混沌游戏表示(CGR)结合镜像图像生成策略,将蛋白序列递归地围绕中心种子点进行混沌映射,形成独特的视觉模式。我们将TCR序列转化为图像,并采用深度学习视觉模型进行癌症靶向分类,揭示生成图像中的视觉模式与蛋白属性之间的关联。该方法结合了基于CGR的图像生成与深度学习分类,为蛋白质分析开辟了新路径。
原文摘要 · Abstract (English)
Cancer is a complex disease characterized by uncontrolled cell growth. T cell receptors (TCRs), crucial proteins in the immune system, play a key role in recognizing antigens, including those associated with cancer. Recent advancements in sequencing technologies have facilitated comprehensive profiling of TCR repertoires, uncovering TCRs with potent anti-cancer activity and enabling TCR-based immunotherapies. However, analyzing these intricate biomolecules necessitates efficient representations that capture their structural and functional information. T-cell protein sequences pose unique challenges due to their relatively smaller lengths compared to other biomolecules. An image-based representation approach becomes a preferred choice for efficient embeddings, allowing for the preservation of essential details and enabling comprehensive analysis of T-cell protein sequences. In this paper, we propose to generate images from the protein sequences using the idea of Chaos Game Representation (CGR) using the Kaleidoscopic images approach. This Deep Learning Assisted Analysis of Protein Sequences Using Chaos Enhanced Kaleidoscopic Images (called DANCE) provides a unique way to visualize protein sequences by recursively applying chaos game rules around a central seed point. we perform the classification of the T cell receptors (TCRs) protein sequences in terms of their respective target cancer cells, as TCRs are known for their immune response against cancer disease. The TCR sequences are converted into images using the DANCE method. We employ deep-learning vision models to perform the classification to obtain insights into the relationship between the visual patterns observed in the generated kaleidoscopic images and the underlying protein properties. By combining CGR-based image generation with deep learning classification, this study opens novel possibilities in the protein analysis domain.
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