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相关概念视频

RNA Interference01:23

RNA Interference

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RNA interference (RNAi) is a process in which a small non-coding RNA molecule blocks the post-transcriptional expression of a gene by binding to its messenger RNA (mRNA) and preventing the protein from being translated.
This process occurs naturally in cells, often through the activity of genomically-encoded microRNAs. Researchers can take advantage of this mechanism by introducing synthetic RNAs to deactivate specific genes for research or therapeutic purposes. For example, RNAi could be used...
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Experimental RNAi02:15

Experimental RNAi

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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...
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RNA-seq03:21

RNA-seq

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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...
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RNA Structure01:23

RNA Structure

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Overview
The basic structure of RNA consists of a five-carbon sugar and one of four nitrogenous bases. Although most RNA is single-stranded, it can form complex secondary and tertiary structures. Such structures play essential roles in the regulation of transcription and translation.
Different Types of RNA Have the Same Basic Structure
There are three main types of ribonucleic acid (RNA): messenger RNA (mRNA), transfer RNA (tRNA), and ribosomal RNA (rRNA). All three RNA types consist of a...
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Nucleic Acid Structure01:25

Nucleic Acid Structure

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The pentose sugar in DNA is deoxyribose, while in RNA the pentose sugar is ribose. The difference between the sugars is the presence of the hydroxyl group on the ribose's second carbon and a hydrogen on the deoxyribose's second carbon. The phosphate residue attaches to the hydroxyl group of the 5′ carbon of one sugar and the hydroxyl group of the 3′ carbon of the sugar of the next nucleotide, which forms  a 5′ to 3′ phosphodiester linkage.
DNA Structure
DNA...
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Types of RNA01:20

Types of RNA

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Three main types of RNA are involved in protein synthesis: messenger RNA (mRNA), transfer RNA (tRNA), and ribosomal RNA (rRNA). These RNAs perform diverse functions and can be broadly classified as protein-coding or non-coding RNA. Non-coding RNAs play important roles in regulating gene expression in response to developmental and environmental changes. Non-coding RNAs in prokaryotes can be manipulated to develop more effective antibacterial drugs for human or animal use.
RNA Performs Diverse...
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相关实验视频

Updated: Jan 16, 2026

An Optimized Quantitative Pull-Down Analysis of RNA-Binding Proteins Using Short Biotinylated RNA
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An Optimized Quantitative Pull-Down Analysis of RNA-Binding Proteins Using Short Biotinylated RNA

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小分子方法对RNA准绑定器发现 (SMARTBind) 使用深度学习而没有结构输入.

Shiyu Jiang1, Amirhossein Taghavi2, Tenghui Wang2,3

  • 1Department of Medicinal Chemistry, Center for Natural Products, Drug Discovery and Development, University of Florida, Gainesville, FL 32610, USA.

bioRxiv : the preprint server for biology
|October 3, 2025
PubMed
概括
此摘要是机器生成的。

我们开发了SMARTBind,这是一个新的计算工具,可以准确地识别准RNA的小分子. 这种RNA绑定器发现平台具有成本效益,并大大降低了药物开发的计算需求.

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RNA Pull-down Procedure to Identify RNA Targets of a Long Non-coding RNA
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Exploring Sequence Space to Identify Binding Sites for Regulatory RNA-Binding Proteins

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相关实验视频

Last Updated: Jan 16, 2026

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An Optimized Quantitative Pull-Down Analysis of RNA-Binding Proteins Using Short Biotinylated RNA

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RNA Pull-down Procedure to Identify RNA Targets of a Long Non-coding RNA
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科学领域:

  • 计算化学是一种计算化学.
  • 分子生物学分子生物学
  • 药物发现 药物发现

背景情况:

  • 识别RNA的小分子结合剂对于开发化学探针和治疗方法至关重要.
  • 目前用于RNA向小分子发现的计算方法往往具有较低的准确性和较高的计算成本.

研究的目的:

  • 介绍SMARTBind,一种用于RNA向小分子结合剂发现的新型结构不可知框架.
  • 提高计算机RNA向药物发现的准确性和效率.

主要方法:

  • SMARTBind集成了一个RNA大语言模型,在广泛的RNA序列数据上进行预训练,具有对比学习.
  • 采用一种对联体特异的诱增强策略,以解决数据稀缺性和提高模型通用性.
  • 该框架仅使用RNA初级序列来识别小分子结合物及其结合点.

主要成果:

  • 与现有的数据驱动和基于对接的方法相比,SMARTBind在多个基准测试中表现优越.
  • 该平台显著降低了与RNA向小分子发现相关的计算成本.
  • 针对microRNA-21的前体的新型小分子被通过体外和细胞测试识别和验证.

结论:

  • SMARTBind提供了一个可扩展,准确和结构独立的平台,用于发现向RNA的小分子.
  • 开发的框架具有促进化学探测和治疗开发的巨大潜力.
  • 这种方法解决了RNA - 连接体相互作用的当前计算方法的关键局限性.