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相关概念视频

Conserved Binding Sites01:49

Conserved Binding Sites

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Many proteins’ biological role depends on their interactions with their ligands, small molecules that bind to specific locations on the protein known as ligand-binding sites. Ligand-binding sites are often conserved among homologous proteins as these sites are critical for protein function.
Binding sites are often located in large pockets, and if their location on a protein’s surface is unknown, it can be predicted using various approaches. The energetic method computationally...
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Cooperative Binding of Transcription Regulators02:13

Cooperative Binding of Transcription Regulators

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Transcriptional regulators bind to specific cis-regulatory sequences in the DNA to regulate gene transcription. These cis-regulatory sequences are very short, usually less than ten nucleotide pairs in length. The short length means that there is a high probability of the exact same sequence randomly occurring throughout the genome.  Since regulators can also bind to groups of similar sequences, this further increases the chances of random binding. Transcriptional regulators form...
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Cis-regulatory Sequences02:02

Cis-regulatory Sequences

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Cis-regulatory sequences are short fragments of non-coding DNA that are present on the same chromosomes as the genes that they regulate. These fragments serve as binding sites for transcriptional regulators, proteins that are responsible for controlling gene transcription and differential gene expression across cell types in eukaryotes. Cis-regulatory sequences can be close to the gene of interest or thousands of bases away in the DNA sequence; however, those sequences that are further away are...
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相关实验视频

Updated: Jul 6, 2025

Identification of Circular RNAs using RNA Sequencing
08:25

Identification of Circular RNAs using RNA Sequencing

Published on: November 14, 2019

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CircSI-SSL:基于自主监督学习的circRNA结合部位识别.

Chao Cao1,2, Chunyu Wang3, Shuhong Yang4

  • 1Yangtze Delta Region Institute (Quzhou), University of Electronic Science and Technology of China, Quzhou, Zhejiang 324003, China.

Bioinformatics (Oxford, England)
|January 5, 2024
PubMed
概括
此摘要是机器生成的。

一个新的自主监督学习算法CircSI-SSL准确地预测了圆形RNA (circRNA) 蛋白质结合部位. 这种方法克服了对广泛标记数据的需求,大大推进了circRNA研究.

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PAR-CliP - A Method to Identify Transcriptome-wide the Binding Sites of RNA Binding Proteins
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In Silico Identification and Characterization of circRNAs During Host-Pathogen Interactions
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相关实验视频

Last Updated: Jul 6, 2025

Identification of Circular RNAs using RNA Sequencing
08:25

Identification of Circular RNAs using RNA Sequencing

Published on: November 14, 2019

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PAR-CliP - A Method to Identify Transcriptome-wide the Binding Sites of RNA Binding Proteins
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PAR-CliP - A Method to Identify Transcriptome-wide the Binding Sites of RNA Binding Proteins

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In Silico Identification and Characterization of circRNAs During Host-Pathogen Interactions
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In Silico Identification and Characterization of circRNAs During Host-Pathogen Interactions

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科学领域:

  • 生物化学 生化学
  • 生物信息学是一种生物信息学.
  • 分子生物学分子生物学

背景情况:

  • 循环RNA (circRNAs) 正因其在蛋白质结合中的作用而受到越来越多的关注.
  • 目前对circRNAs的蛋白质结合位点识别算法受到监督,需要大量的标记数据.
  • 获取circRNA研究的标记数据需要进行广泛而艰难的生物实验.

研究的目的:

  • 开发一种新的自我监督学习算法,用于circRNA蛋白结合部位的识别.
  • 克服监督方法的局限性,需要大量标记的培训样本.
  • 为预测circRNA-蛋白相互作用提供一种更有效,更可扩展的方法.

主要方法:

  • 提出CircSI-SSL,这是一个自我监督的学习算法,用于预测circRNA结合部位.
  • 结合了多个特征编码方案,并利用RNA_Transformer进行交叉视图序列预测.
  • 雇员自主监督学习以从多视图数据中捕获相互信息,然后通过最小的标记样本进行微调.

主要成果:

  • CircSI-SSL在六个circRNA数据集上表现出色,超过了以前的算法.
  • 即使在 1: 9 的训练测试数据比率下,也能达到高准确度.
  • 通过成功的移植实验,在六个 lncRNA 数据集上展示了良好的可扩展性,没有修改.

结论:

  • CircSI-SSL为传统的监督算法提供了一个强大的替代方案,用于circRNA-binding site预测.
  • 自主监督的方法显著减少了对标记数据的依赖,使circRNA研究更容易获得.
  • 该算法的可扩展性表明它在各种与RNA相关的预测任务中具有广泛的应用性.