Suppr超能文献

基于分支长度距离的新广义度量用于比较B细胞谱系树。

New generalized metric based on branch length distance to compare B cell lineage trees.

作者信息

Farnia Mahsa, Tahiri Nadia

机构信息

Department of Computer Science, University of Sherbrooke, 2500, boul. de l'Université, Sherbrooke, QC, J1K 2R1, Canada.

出版信息

Algorithms Mol Biol. 2024 Oct 5;19(1):22. doi: 10.1186/s13015-024-00267-1.

Abstract

The B cell lineage tree encapsulates the successive phases of B cell differentiation and maturation, transitioning from hematopoietic stem cells to mature, antibody-secreting cells within the immune system. Mathematically, this lineage can be conceptualized as an evolutionary tree, where each node represents a distinct stage in B cell development, and the edges reflect the differentiation pathways. To compare these lineage trees, a rigorous mathematical metric is essential. Analyzing B cell lineage trees mathematically and quantifying changes in lineage attributes over time necessitates a comparison methodology capable of accurately assessing and measuring these changes. Addressing the intricacies of multiple B cell lineage tree comparisons, this study introduces a novel metric that enhances the precision of comparative analysis. This metric is formulated on principles of metric theory and evolutionary biology, quantifying the dissimilarities between lineage trees by measuring branch length distance and weight. By providing a framework for systematically classifying lineage trees, this metric facilitates the development of predictive models that are crucial for the creation of targeted immunotherapy and vaccines. To validate the effectiveness of this new metric, synthetic datasets that mimic the complexity and variability of real B cell lineage structures are employed. We demonstrated the ability of the new metric method to accurately capture the evolutionary nuances of B cell lineages.

摘要

B细胞谱系树概括了B细胞分化和成熟的连续阶段,在免疫系统中从造血干细胞过渡到成熟的、分泌抗体的细胞。从数学角度来看,这个谱系可以被概念化为一棵进化树,其中每个节点代表B细胞发育的一个独特阶段,而边则反映分化途径。为了比较这些谱系树,一个严格的数学度量是必不可少的。对B细胞谱系树进行数学分析并量化谱系属性随时间的变化,需要一种能够准确评估和测量这些变化的比较方法。针对多个B细胞谱系树比较的复杂性,本研究引入了一种新的度量,提高了比较分析的精度。这个度量是基于度量理论和进化生物学的原理制定的,通过测量分支长度距离和权重来量化谱系树之间的差异。通过提供一个系统分类谱系树的框架,这个度量促进了预测模型的发展,而这些模型对于创建靶向免疫疗法和疫苗至关重要。为了验证这个新度量的有效性,使用了模拟真实B细胞谱系结构的复杂性和变异性的合成数据集。我们证明了新度量方法能够准确捕捉B细胞谱系的进化细微差别。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0f69/11453055/3c71c1c5d190/13015_2024_267_Fig1_HTML.jpg

文献AI研究员

20分钟写一篇综述,助力文献阅读效率提升50倍。

立即体验

用中文搜PubMed

大模型驱动的PubMed中文搜索引擎

马上搜索

文档翻译

学术文献翻译模型,支持多种主流文档格式。

立即体验