VIP-OT:通过振动绘画和最佳传输解剖扰乱下的单细胞生物化学状态动力学
Xuemeng Li1,2, Stefan G Stark3,2, Xinwen Liu1,2
1Department of Chemistry, Columbia University, New York, NY, USA.
bioRxiv : the preprint server for biology
|December 22, 2025
概括
振动绘画-最佳传输 (VIP-OT) 从成像数据中重建细胞状态过渡,从而能够预测药物反应. 这个框架将细胞异质性追溯到基线代谢状态以进行动态分析.
科学领域:
- 一个单细胞分析.
- 生物物理学的生物物理.
- 计算生物学是一种计算生物学.
背景情况:
- 对于细胞生物学来说,了解细胞异质性对干扰的反应至关重要.
- 目前的方法难以建模动态细胞状态转换.
- 振动成像提供无标签的分子指纹,但缺乏动态分析能力.
研究的目的:
- 引入振动绘画-最佳运输 (VIP-OT),这是分析单细胞扰动反应的综合框架.
- 从静态成像数据计算重建细胞状态过渡轨迹.
- 为了能够预测细胞对化学治疗反应的预测建模.
主要方法:
- 将多重化红外 (IR) 和拉曼成像与最佳传输算法结合起来.
- 在16种药物治疗下,分析了来自人类乳腺腺癌细胞的22000多个单细胞光谱.
- 开发一种机器学习模型,从治疗前的光谱中预测治疗后的代谢状态.
主要成果:
- VIP-OT成功地将药物反应异质性追溯到基线代谢状态.
- 机器学习模型准确地预测了治疗后的单个细胞代谢状态.
- 光谱速度的概念是为了绘制动态反应轨迹和解决药物组合效应而引入的.
结论:
- VIP-OT提供了一个新的框架,用于在单细胞分辨率下剖析异质细胞反应.
- 这种方法可以开发用于扰动研究的虚拟细胞模拟器.
- VIP-OT利用高内容振动成像和可解释的计算建模来进行动态细胞分析.
相关概念视频
Protein Dynamics in Living Cells
2.6K
Different fluorescence-based techniques are used to study the protein dynamics in living cells. These techniques include FRAP, FRET, and PET.
Fluorescent recovery after photobleaching (FRAP) is a fluorescent-protein-based detection technique used to quantify protein movement rates within the cell. This method exposes a small portion of the cell to an intense laser beam. The laser beam causes permanent photobleaching of the fluorophore-tagged proteins in the exposed region. As the bleached...
Fluorescent recovery after photobleaching (FRAP) is a fluorescent-protein-based detection technique used to quantify protein movement rates within the cell. This method exposes a small portion of the cell to an intense laser beam. The laser beam causes permanent photobleaching of the fluorophore-tagged proteins in the exposed region. As the bleached...
2.6K
Non-equilibrium in the Cell
5.3K
An important concept in studying metabolism and energy is that of chemical equilibrium. Most chemical reactions are reversible. They can proceed in both directions, releasing energy into their environment in one direction, and absorbing it from the environment in the other direction. The same is true for the chemical reactions involved in cell metabolism, such as the breaking down and building up of proteins into and from individual amino acids, respectively. Reactants within a closed system...
5.3K


