相关实验视频

Updated: Mar 13, 2026

Genome-wide Protein-protein Interaction Screening by Protein-fragment Complementation Assay PCA in Living Cells

Genome-wide Protein-protein Interaction Screening by Protein-fragment Complementation Assay PCA in Living Cells

Published on: March 3, 2015

蛋白质与蛋白质相互作用的快速蛋白质广泛发现与ppIRIS

Luiz Felipe Piochi¹, Di Tang², Johan Malmström^2,3

¹Université de Lorraine, CNRS, Inria, LORIA, Nancy, France.

Advanced science (Weinheim, Baden-Wurttemberg, Germany)

|March 12, 2026

概括

我们开发了ppIRIS,这是一个深度学习工具,可以从序列中预测蛋白质与蛋白质相互作用 (PPI). 它可以快速,准确地对细菌和跨物种的PPI进行全蛋白体查.

科学领域:

计算生物学计算生物学
生物信息学是一种生物信息学.
系统生物学系统生物学

背景情况:

蛋白与蛋白相互作用 (PPI) 对细胞功能和宿主-病原体相互作用至关重要.
绘制完整的交互原子是具有挑战性的,因为实验和计算方法的局限性.
现有的计算工具往往缺乏广泛的适用性,或者在计算上昂贵.

研究的目的:

引入ppIRIS,这是一个新的深度学习框架,用于从蛋白质序列直接预测PPI.
为了使PPI的有效和准确的蛋白质组范围的查.
促进在细菌和跨物种中发现新型PPI.

主要方法:

ppIRIS集成了使用轻量级深度学习架构 (代罗网络) 的进化和结构嵌入.
该框架可以从氨基酸序列直接预测PPI.
该模型使用细菌数据集进行训练,并根据多种基准进行评估.

主要成果:

ppIRIS在多种PPI预测基准中实现了最先进的准确性.
该工具在几分钟内实现了全蛋白质组选,识别了与毒性相关的A组链球菌 (GAS) 中的功能集群.
跨物种预测发现了显著的GAS-人体血相互作用,丰富了与免疫相关的途径,并实验验证了新的预测.

结论:

ppIRIS是一个强大而有效的工具,用于系统地发现细菌和跨物种的PPI.
该框架通过提供可扩展和可泛化的计算方法来推进互动组映射.
已识别的PPI提供了细菌毒性和宿主-病原体动态的见解.

关键词:

跨物种相互作用跨物种相互作用深度学习是一种深度学习.一组A型链球菌蛋白质语言模型的模型蛋白质与蛋白质的相互作用整个蛋白质组的分析.毒性因素是毒性的因素.

更多相关视频

Mapping Dysfunctional Protein-Protein Interactions in Disease

Mapping Dysfunctional Protein-Protein Interactions in Disease

Published on: October 24, 2025

A Mass Spectrometry-Based Approach to Identify Phosphoprotein Phosphatases and their Interactors

A Mass Spectrometry-Based Approach to Identify Phosphoprotein Phosphatases and their Interactors

Published on: April 29, 2022

相关概念视频

Protein-protein Interfaces

Protein-protein Interfaces

Many proteins form complexes to carry out their functions, making protein-protein interactions (PPIs) essential for an organism's survival. Most PPIs are stabilized by numerous weak noncovalent chemical forces. The physical shape of the interfaces determines the way two proteins interact. Many globular proteins have closely-matching shapes on their surfaces, which form a large number of weak bonds. Additionally, many PPIs occur between two helices or between a surface cleft and a...

Protein-Protein Interfaces

Protein-Protein Interfaces

Protein Networks

Protein Networks

An organism can have thousands of different proteins, and these proteins must cooperate to ensure the health of an organism. Proteins bind to other proteins and form complexes to carry out their functions. Many proteins interact with multiple other proteins creating a complex network of protein interactions.
These interactions can be represented through maps depicting protein-protein interaction networks, represented as nodes and edges. Nodes are circles that are representative of a protein,...

piRNA - Piwi-interacting RNAs

piRNA - Piwi-interacting RNAs

PIWI-interacting RNAs, or piRNAs, are the most abundant short non-coding RNAs. More than 20,000 genes have been found in humans that code for piRNAs while only 2000 genes have been found for miRNAs. piRNAs can act at the transcriptional and post-transcriptional levels and have a vital role in silencing transposable elements present in germ cells. They are also involved in epigenetic silencing and activation. Previously, they were thought to function only in germ cells but new evidence suggests...