mRSubLoc:一种新的多标签学习框架,集成RNA大语言模型用于mRNA亚细胞局部化
IEEE journal of biomedical and health informatics
|July 22, 2025
概括
我们开发了mRSubLoc,这是一个深度学习模型,用于预测信使RNA (mRNA) 的细胞下定位. 该工具可以提高多局部化任务的准确性,帮助疾病诊断和药物发现.
科学领域:
- 分子生物学分子生物学
- 生物信息学是一种生物信息学.
- 计算生物学 计算生物学
背景情况:
- 传递 RNA (mRNA) 的亚细胞局部化对于基因表达调节和向药物开发至关重要.
- 对于mRNA本地化预测的现有计算模型在序列表示和多本地化任务中面临挑战.
研究的目的:
- 提出mRSubLoc,一个新的多标签深度学习框架,用于预测mRNA亚细胞局部化.
- 提高mRNA局部化预测的准确性和效率,特别是在多局部化场景中.
主要方法:
- 集成的RNA大语言模型 (RNAErnie) 具有一热编码和Word2Vec嵌入,用于全面的mRNA序列表示.
- 使用文本卷积神经网络 (TextCNN) 来提取本地特征,以及双向长期短期记忆 (BiLSTM) 来捕获远程依赖.
- 利用多头自我注意和多层感知器 (MLP) 来融合特征并探索复杂的依赖关系,以准确地预测多局部化.
主要成果:
- mRSubLoc在测试套件上显著超过了最先进的方法.
- 在多个指标上实现了高性能:目标 (0.7858),覆盖范围 (0.6212),准确性 (0.6161),绝对真实 (0.3070) 和绝对虚假 (0.1319).
结论:
- mRSubLoc为预测mRNA亚细胞局部化提供了一种新且有效的方法.
- 该框架为促进生物医学研究中的疾病诊断和药物发现提供了新的视角.
相关概念视频
Regulated mRNA Transport
6.4K
In eukaryotes, transcription and translation are compartmentalized; an mRNA is first synthesized in the nucleus and then selectively transported to the cytoplasm for protein synthesis. Before transport, a pre-mRNA undergoes several steps of post-transcriptional modifications including splicing, 5' capping, and the addition of a poly-adenine tail. Various proteins bind to the pre-mRNA during these modifications. The mRNA transport takes place with the help of multiple proteins playing...
6.4K
Ribosome Profiling
3.6K
Ribosome profiling or ribo-sequencing is a deep sequencing technique that produces a snapshot of active translation in a cell. It selectively sequences the mRNAs protected by ribosomes to get an insight into a cell’s translation landscape at any given point in time.
Applications of ribosome profiling
Ribosome profiling has many applications, including in vivo monitoring of translation inside a particular organ or tissue type and quantifying new protein synthesis levels.
The technique...
Applications of ribosome profiling
Ribosome profiling has many applications, including in vivo monitoring of translation inside a particular organ or tissue type and quantifying new protein synthesis levels.
The technique...
3.6K
Alternative RNA Splicing
21.7K
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...
21.7K
Nuclear Localization Signals and Import
6.0K
Proteins targeted to the nucleus carry short stretches of amino acid sequences called the nuclear localization signal or NLS. Classical nuclear localization signals are of two types: monopartite and bipartite NLS. Monopartite classical NLS (cNLS) consists of a single cluster of 4-8 amino acids. Bipartite cNLS consists of two clusters of 2-3 amino acids and a 9-12 residue long proline-rich linker bridging the two clusters. Signal clusters are rich in positively charged amino acids such as...
6.0K
lncRNA - Long Non-coding RNAs
9.0K
In humans, more than 80% of the genome gets transcribed. However, only around 2% of the genome codes for proteins. The remaining part produces non-coding RNAs which includes ribosomal RNAs, transfer RNAs, telomerase RNAs, and regulatory RNAs, among other types. A large number of regulatory non-coding RNAs have been classified into two groups depending upon their length – small non-coding RNAs, such as microRNA, which are less than 200 nucleotides in length, and long non-coding RNA...
9.0K
Riboswitches
8.5K
Riboswitches are non-coding mRNA domains that regulate the transcription and translation of downstream genes without the help of proteins. Riboswitches bind directly to a metabolite and can form unique stem-loop or hairpin structures in response to the amount of the metabolite present. They have two distinct regions – a metabolite-binding aptamer and an expression platform.
The aptamer has high specificity for a particular metabolite which allows riboswitches to specifically regulate...
The aptamer has high specificity for a particular metabolite which allows riboswitches to specifically regulate...
8.5K


