TMTCrunch:一种替代分离的蛋白质原子图谱,用于预测分离引起的衰老和阿尔茨海默病的影响
Max Brazhnikov1, Tomiris Kusainova1, Anna S Kopeykina1
1V.L.Talrose Institute for Energy Problems of Chemical Physics, Federal Research Center of Chemical Physics, Russian Academy of Sciences, Moscow 119334, Russia.
Journal of proteome research
|September 30, 2025
概括
我们开发了一个新的生物信息学工具TMTCrunch,用于分析阿尔茨海默病 (AD) 中的替代拼接蛋白质形式. 这种工具确定了870种新的蛋白质形式,揭示了它们与神经退行和潜在的治疗点的联系.
科学领域:
- 神经科学是一个神经科学.
- 蛋白质组学是指蛋白质组学.
- 生物信息学是一种生物信息学.
背景情况:
- 阿尔茨海默病 (AD) 的发病原因尚不清楚,研究替代拼接 (AS) 衍生蛋白形的工具有限.
- 了解蛋白质形式对神经退行症的贡献对于阿尔茨海默病研究至关重要.
研究的目的:
- 开发和应用一个新的生物信息管道,TMTCrunch,用于在拼接-蛋白质形式层面对蛋白质组学数据的定量元分析.
- 构建第一个在AD中拼接转化体的图书馆,并确定与神经退行相关的新型蛋白质.
主要方法:
- 开发了TMTCrunch,用于在拼接-蛋白质形式层面对大蛋白质组学数据进行严格的定量元分析.
- 通过独特的体来表征蛋白质形式,评估与正规的相似性,并采用基于SMD的量化.
- 在蛋白质-蛋白质相互作用 (PPI) 和新型后翻译修饰 (PTM) 中预测的蛋白形特异性变化.
主要成果:
- 应用TMTCrunch对420个大脑样本,识别了870种可复制的非正规蛋白形.
- 差异分析涉及到对细胞骨调节,谷氨酸传递和信号通路中的影响拼接的蛋白质形式.
- 在Rho GTPase和EGFR通路中预测PPI的破坏,并在AS区域内确定了新的PTM.
结论:
- 这项研究提供了第一个阿尔茨海默病中拼接翻译体的图谱.
- 确定了与神经退行相关的特定蛋白质形式 (例如,DPP6,GRIA3,3R-MAPT,ASPH).
- 建立了一种新的方法,将替代拼接与神经退行联系起来,为AD病变发生提供了新的见解.
相关概念视频
Alternative RNA Splicing
24.7K
Alternative RNA splicing is the regulated splicing of exons and introns to produce different mature mRNAs from a single pre-mRNA. Unlike in constitutive splicing where a single gene produces a single type of mRNA, alternative splicing allows an organism to produce multiple proteins from a single gene and plays an important role in protein diversity.
There are five types of alternative RNA splicing that vary in the ways the pre-mRNA segments are removed or retained in the mature mRNA. The first...
There are five types of alternative RNA splicing that vary in the ways the pre-mRNA segments are removed or retained in the mature mRNA. The first...
24.7K
Alternative RNA Splicing
4.8K
4.8K
RNA Splicing
60.4K
Splicing is the process by which eukaryotic RNA is edited before its translation into protein. The RNA strand transcribed from eukaryotic DNA is called the primary transcript. The primary transcripts that become mRNAs are called precursor messenger RNAs (pre-mRNAs). Eukaryotic pre-mRNA contains alternating sequences of exons and introns. Exons are nucleotide sequences that code for proteins, whereas introns are the non-coding regions. In RNA splicing, introns are removed and exons are bonded...
60.4K
Chromatin Structure Regulates pre-mRNA Processing
8.1K
In eukaryotic cells, nascent mRNA transcripts need to undergo many post-transcriptional modifications to reach the cell cytoplasm and translate into functional proteins. For a long time, transcription and pre-mRNA processing were considered two independent events that occur sequentially in the cell. However, it has now been well established that transcription and pre-mRNA processing are two simultaneous processes that are precisely regulated inside the cell.
The chromatin structure, especially...
The chromatin structure, especially...
8.1K
Pre-mRNA Processing: RNA Splicing
6.6K
6.6K
What is Gene Expression?
11.0K
A gene is a stretch of DNA that serves as the blueprint for functional RNAs and proteins. Since DNA is comprised of nucleotides and proteins are comprised of amino acids, a mediator is required to convert the information encoded in DNA into proteins. This mediator is the messenger RNA (mRNA). mRNA copies the blueprint from DNA by a process called transcription. In eukaryotes, transcription occurs in the nucleus by complementary base-pairing with the DNA template. The mRNA is then...
11.0K


