利用结构化生物学知识进行反事实推断:病毒病原性病理学案例研究
Jeremy Zucker1, Kaushal Paneri2, Sara Mohammad-Taheri3
1Pacific Northwest National Laboratory Richland WA 99354 USA.
概括
这项研究引入了一种新的方法,可以从定性生物知识图表中构建定量因果模型. 这种方法在复杂的生物系统中促进反事实推断,有助于理解干预结果.
科学领域:
- 系统生物学 系统生物学
- 计算生物学 计算生物学
- 因果推理因果推理
背景情况:
- 反事实推理对于评估复杂系统中的干预至关重要.
- 由于专业知识和可扩展性问题,指定结构因果模型 (SCM) 是一个挑战.
- 生物领域拥有丰富的,定性因果知识.
研究的目的:
- 开发一种用于查询因果生物学知识图的通用方法.
- 将定性生物知识转化为定量SCM,用于数据驱动的学习.
- 为了在系统生物学中实现准确的反事实推断.
主要方法:
- 查询因果生物学知识图表以获得相关的因果信息.
- 将提取的定性知识转化为定量的SCM.
- 将开发的SCM应用于系统生物学案例研究.
主要成果:
- 证明了拟议方法的可行性,准确性和多功能性.
- 在系统生物学背景下验证了该方法的假设和准确性.
- 成功执行了SARS-CoV-2细胞因子风暴决定因素的反事实推断.
结论:
- 这种方法有效地弥合了定性生物学知识和定量因果模型.
- 能够对复杂的生物学问题进行强大的反事实推断.
- 为系统生物学研究和干预分析提供了一种多功能工具.
更多相关视频
10:11Modeling The Lifecycle Of Ebola Virus Under Biosafety Level 2 Conditions With Virus-like Particles Containing Tetracistronic Minigenomes
Published on: September 27, 2014
36.3K
07:35A Knowledge Graph Approach to Elucidate the Role of Organellar Pathways in Disease via Biomedical Reports
Published on: October 13, 2023
1.7K
相关概念视频
Viral Mutations
32.4K
A mutation is a change in the sequence of bases of DNA or RNA in a genome. Some mutations occur during replication of the genome due to errors made by the polymerase enzymes that replicate DNA or RNA. Unlike DNA polymerase, RNA polymerase is prone to errors because it is not capable of “proofreading” its work. Viruses with RNA-based genomes, like HIV, therefore accrue mutations faster than viruses with DNA-based genomes. Because mutation and recombination provide the raw material...
32.4K
Synthetic Biology
4.8K
Synthetic biology is an interdisciplinary science that involves using principles from disciplines such as engineering, molecular biology, cell biology, and systems biology. It involves remodeling existing organisms from nature or constructing completely new synthetic organisms for applications such as protein or enzyme production, bioremediation, value-added macromolecule production, and the addition of desirable traits to crops, to name a few.
Golden rice
Golden rice is a genetically modified...
Golden rice
Golden rice is a genetically modified...
4.8K
Viral Recombination
23.5K
Cells are sometimes infected by more than one virus at once. When two viruses disassemble to expose their genomes for replication in the same cell, similar regions of their genomes can pair together and exchange sequences in a process called recombination. Alternatively, viruses with segmented genomes can swap segments in a process called reassortment.
23.5K
Mechanisms of Retrovirus-induced Cancers
5.1K
Retroviruses are RNA viruses that have been shown to cause cancers in diverse species, including chickens, mice, cats, and monkeys. The RNA genomes of these viruses are first reverse-transcribed into single and then double-stranded DNA (dsDNA) copies. This dsDNA called proviral DNA then integrates into the host genome. Subsequently, the host cell transcribes the proviral DNA in concert with the chromosomal DNA. This leads to the production of viral RNA and proteins that assemble at the host...
5.1K
Immune Response Against Viral Pathogens
794
The immune system's response to viral infections is a complex and coordinated process involving natural killer (NK) cells, T cell-mediated responses, and antibody-mediated responses.
NK Cells
NK cells are a crucial part of our innate immune system, acting as the first line of defense against viral infections. These cells can recognize and kill infected cells without prior exposure to the virus, effectively slowing down the spread of infection. Additionally, NK cells produce proinflammatory...
NK Cells
NK cells are a crucial part of our innate immune system, acting as the first line of defense against viral infections. These cells can recognize and kill infected cells without prior exposure to the virus, effectively slowing down the spread of infection. Additionally, NK cells produce proinflammatory...
794
What are Viruses?
115.0K
Overview
115.0K
