pathCLIP:通过图像-文本对比学习从生物路径数据中检测基因和基因关系
IEEE journal of biomedical and health informatics
|April 3, 2024
概括
这项研究介绍了pathCLIP,一种用于从生物医学文献人物中提取基因和基因关系的新系统. 通过整合图像和文本数据,pathCLIP增强了精准医学的生物通路治疗.
科学领域:
- 生物信息学是一种生物信息学.
- 计算生物学 计算生物学
- 生物医学信息学 生物医学信息学
背景情况:
- 生物学途径对于理解生物机制和精准医学至关重要.
- 路径信息通常在生物医学文献中使用图像和文本来呈现.
- 现有的方法经常单独分析图像和文本,缺少交叉模式的相关性.
研究的目的:
- 开发一个系统,pathCLIP,用于从图片中整理生物通路信息.
- 识别基因及其在通路图中的关系.
- 利用多式联网学习来改进路径数据提取.
主要方法:
- 开发了pathCLIP,这是一个路径图表策划系统.
- 采用图像-文本对比学习模型,为图像片段和文本描述创建协调嵌入.
- 在PubMed.com的路径数据上训练模型.
主要成果:
- 多模式路径CLIP模型在路径策划方面表现优于单模式模型.
- 该系统成功地从各种文学来源中策划了基因和基因关系.
- 案例研究表明,对非小细胞肺癌和阿尔茨海默病的KEGG通路进行了增强.
结论:
- 多模式学习显著提高了从文献数据中对生物途径策划的准确性.
- pathCLIP提供了一种有效的方法,可以在多个来源中整合路径知识.
- 精选的数据可以增强现有的途径数据库,并支持精准医学研究.
更多相关视频
07:35A Knowledge Graph Approach to Elucidate the Role of Organellar Pathways in Disease via Biomedical Reports
Published on: October 13, 2023
1.6K
10:44Inherent Dynamics Visualizer, an Interactive Application for Evaluating and Visualizing Outputs from a Gene Regulatory Network Inference Pipeline
Published on: December 7, 2021
2.1K
相关概念视频
Evolutionary Relationships through Genome Comparisons
5.7K
Genome comparison is one of the excellent ways to interpret the evolutionary relationships between organisms. The basic principle of genome comparison is that if two species share a common feature, it is likely encoded by the DNA sequence conserved between both species. The advent of genome sequencing technologies in the late 20th century enabled scientists to understand the concept of conservation of domains between species and helped them to deduce evolutionary relationships across diverse...
5.7K
IP3/DAG Signaling Pathway
12.0K
Membrane lipids such as phosphatidylinositol (PI) are precursors for several membrane-bound and soluble second messengers. Specific kinases phosphorylate PI and produce phosphorylated inositol phospholipids. One such inositol phospholipids are the phosphatidylinositol-4,5 bisphosphate [PI(4,5)P2], present in the inner half of the lipid bilayer. Upon ligand binding, GPCR stimulates Gq proteins to turn on phospholipase Cꞵ. Activated phospholipase Cꞵ cleaves PI(4,5)P2 and...
12.0K
Genome Annotation and Assembly
18.8K
The genome refers to all of the genetic material in an organism. It can range from a few million base pairs in microbial cells to several billion base pairs in many eukaryotic organisms. Genome assembly refers to the process of taking the DNA sequencing data and putting it all back together in a correct order to create a close representation of the original genome. This is followed by the identification of functional elements on the newly assembled genome, a process called genome annotation.
18.8K
Epistasis Analysis
5.0K
Although Mendel chose seven unrelated traits in peas to study gene segregation, most traits involve multiple gene interactions that create a spectrum of phenotypes. When the interaction of various genes or alleles at different locations influences a phenotype, this is called epistasis. Epistasis often involves one gene masking or interfering with the expression of another (antagonistic epistasis). Epistasis often occurs when different genes are part of the same biochemical pathway. The...
5.0K
