RENOVO-NF1准确地预测了NF1误解变异的致病性
Emanuele Bonetti1, Serena Pellegatta2, Nayma Rosati2
1Laboratory of Translational Oncology, European Institute of Oncology IRCCS, Milan, Italy.
Human genomics
|August 31, 2025
概括
一个新的计算工具RENOVO-NF1准确地解释了神经纤维瘤1型 (NF1) 变体. 当变种信息最初不足以进行分类时,该工具有助于克服诊断挑战.
科学领域:
- 遗传学
- 计算生物学
- 医疗诊断
背景情况:
- 鉴定NF1基因的致病变体对于诊断神经纤维素瘤至关重要,但由于等位基因异质性和缺乏功能测试等因素,通常具有挑战性.
- 现有的计算工具尚未为NF1变体解释建立,这突显了对专门解决方案的需求.
研究的目的:
- 优化和验证基于森林的随机预测器RENOVO,以准确解释NF1变异.
- 评估RENOVO在对立即诊断使用的信息不足的变体进行分类方面的表现,模仿真实世界的临床场景.
主要方法:
- 使用"数据库考古学"开发RENOVO,分析历史ClinVar数据以识别用于训练的"稳定"变体 (一致分类) 和用于测试的"不稳定"变体 (从VUS重新分类).
- 在两个独立的组件中验证了性能:最初未知意义 (VUS) 变异的ClinVar重新分类和根据ACMG标准分类的临床队列中的de novo变异.
主要成果:
- 在各个数据集中,RENOVO的准确度高:培训98. 6%,测试96. 5%,验证组1的82% (错误变体为96. 2%) 和验证组2的93. 7%.
- 该工具表现一致,表明它在解释有限的初始数据的NF1变异方面具有可靠性.
结论:
- RENOVO-NF1准确地解释了NF1变异,特别是那些在检测时缺乏足够信息的标准ACMG分类.
- 这种计算工具显示出解决神经纤维素瘤1型的诊断挑战的巨大潜力.
更多相关视频
相关概念视频
Single Nucleotide Polymorphisms-SNPs
15.8K
A single nucleotide polymorphism or SNP is a single nucleotide variation at a specific genomic position in a large population. It is the most prevalent type of sequence variation found in the human genome. Point mutations that occur in more than 1% of the population qualify as SNPs. These are present once every 1000 nucleotides on an average in the human genome. Replacement of a purine with another purine (A/G) or a pyrimidine with another pyrimidine (C/T) is known as a transition. In contrast,...
15.8K
NF-κB-dependent Signaling Pathway
7.8K
The transcription factor NF-κB was discovered in 1986 in the lab of Nobel laureate Professor David Baltimore, for its interaction with the immunoglobulin light chain enhancer in B-cells. After more than three decades of study, it is now evident that NF-κB regulates the expression of over 100 genes. Most of these genes play an essential role in the innate and adaptive immune responses as well as the inflammatory responses of animals.
NF-κB-dependent Signaling Mechanism
The...
NF-κB-dependent Signaling Mechanism
The...
7.8K
Point and Frameshift Mutations
80
Point mutations are genetic alterations involving the change of a single nucleotide base pair in DNA. Depending on how the alteration affects protein synthesis, they can lead to various consequences.Point mutations fall into the following types:Silent mutations occur when a nucleotide change does not alter the amino acid sequence due to the redundancy of the genetic code. For instance, changing ACC to ACA still encodes threonine, leaving the protein function unaffected. This occurs because...
80
Predicting Products: SN1 vs. SN2
13.9K
Nucleophilic substitution reactions of alkyl halides can proceed via an SN1 or an SN2 mechanism. While in SN2 reactions, the nucleophile attacks the substrate simultaneously as the leaving group departs, in SN1 reactions, the substrate first dissociates to give the carbocation intermediate. Various factors such as the structure of the substrate, the strength of the nucleophile, and the nature of the solvent promote one mechanism over the other.
With increased substitution on the alkyl halide,...
With increased substitution on the alkyl halide,...
13.9K
Protein Folding Quality Check in the RER
3.8K
ER is the primary site for the maturation and folding of soluble and transmembrane secretory proteins. The calnexin cycle is a specific chaperone system that folds and assesses the confirmation of N-glycosylated proteins before they can exit the ER lumen. The primary players of this quality check pipeline are the lectins, ER-resident chaperones, and a glucosyl transferase enzyme. In case the calnexin system in the lumen fails to salvage a misfolded protein, it is transported to the cytoplasm...
3.8K
The Retinoblastoma Gene
4.2K
Tumor suppressor genes are normal genes that can slow down cell division, repair DNA mistakes, or program the cells for apoptosis in case of irreparable damage. Hence, they play an essential role in preventing the proliferation of damaged cells.
The first-ever tumor suppressor gene called Rb was identified in retinoblastoma - a rare eye tumor in children. In inherited forms of the disease, a child inherits one defective copy of the Rb gene, which predisposes them to retinoblastoma. However,...
The first-ever tumor suppressor gene called Rb was identified in retinoblastoma - a rare eye tumor in children. In inherited forms of the disease, a child inherits one defective copy of the Rb gene, which predisposes them to retinoblastoma. However,...
4.2K


