相关实验视频

Updated: May 10, 2025

A Bioinformatics Pipeline to Accurately and Efficiently Analyze the MicroRNA Transcriptomes in Plants

A Bioinformatics Pipeline to Accurately and Efficiently Analyze the MicroRNA Transcriptomes in Plants

Published on: January 21, 2020

定义:一种基于深度学习的计算方法,用于准确识别RNA伪乌里丁位点

Bo Han¹, Sudan Bai², Yang Liu¹

¹Jilin Chemical Hospital, Jilin, P.R. China.

|April 24, 2025

概括

定义器使用深度学习准确地识别RNA伪乌里丁位点. 这种计算方法改进了分析多种物种高通量测序数据的现有技术.

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.
基因组学就是基因组学.

背景情况:

伪尤里丁是一种在非编码RNA中发现的关键RNA修饰,影响基因表达,RNA稳定性和疾病.
准确识别伪乌里丁位点对于理解其功能机制至关重要.
传统的实验方法对于现代基因组学数据的规模是不够的.

研究的目的:

开发一种计算方法,用于准确识别RNA伪尿素位点.
应用深度学习来预测Homo sapiens,Saccharomyces cerevisiae和Mus musculus中的伪乌里丁修饰部位.

主要方法:

开发了一个名为Definer的深度学习模型.
定义器使用了两个序列编码方案:核酸组成概况 (NCP) 和一热编码.
该模型整合了卷积神经网络 (CNN),门式循环单元 (GRU) 和注意力机制.

主要成果:

与现有方法相比,Definer在三个物种的基准数据集上表现出卓越的性能.
10次交叉验证证实了该方法的稳定性.
在Homo sapiens和Saccharomyces cerevisiae数据集上的独立测试验证了Definer的预测准确性.

结论:

定义器提供了一个准确和高效的计算方法来识别RNA伪乌里丁修饰站点.
该方法适用于不同物种,有助于RNA修饰的功能分析.

更多相关视频

Rare Event Detection Using Error-corrected DNA and RNA Sequencing

Rare Event Detection Using Error-corrected DNA and RNA Sequencing

Published on: August 3, 2018

Sample Preparation for Mass Spectrometry-based Identification of RNA-binding Regions

Sample Preparation for Mass Spectrometry-based Identification of RNA-binding Regions

Published on: September 28, 2017

相关概念视频

RNA-seq

RNA-seq

RNA sequencing, or RNA-Seq, is a high-throughput sequencing technology used to study the transcriptome of a cell. Transcriptomics helps to interpret the functional elements of a genome and identify the molecular constituents of an organism. Additionally, it also helps in understanding the development of an organism and the occurrence of diseases.
Before the discovery of RNA-seq, microarray-based methods and Sanger sequencing were used for transcriptome analysis. However, while...

Experimental RNAi

Experimental RNAi

RNA interference (RNAi) is a cellular mechanism that inhibits gene expression by suppressing its transcription or activating the RNA degradation process. The mechanism was discovered by Andrew Fire and Craig Mello in 1998 in plants. Today, it is observed in almost all eukaryotes, including protozoa, flies, nematodes, insects, parasites, and mammals. This precise cellular mechanism of gene silencing has been developed into a technique that provides an efficient way to identify and determine the...

Ribosome Profiling

Ribosome Profiling

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...

RNA Editing

RNA Editing

RNA editing is a post-transcriptional modification where a precursor mRNA (pre-mRNA) nucleotide sequence is changed by base insertion, deletion, or modification. The extent of RNA editing varies from a few hundred bases, in mitochondrial DNA of trypanosomes, to a just single base, in nuclear genes of mammals. Even a single base change in the pre-mRNA can convert a codon for one amino acid into the codon for another amino acid or a stop codon. This type of re-coding can significantly affect the...