导演:基于转录组的小分子预测,这些小分子可以替代转录因子,用于直接细胞转化
Momoko Hamano1, Toru Nakamura1, Ryoku Ito1
1Department of Bioscience and Bioinformatics, Faculty of Computer Science and Systems Engineering, Kyushu Institute of Technology, Iizuka, Fukuoka 820-8502, Japan.
Bioinformatics (Oxford, England)
|January 26, 2024
概括
我们开发了DIRECTEUR,这是一种用于识别用于直接重编程 (DR) 的小分子的计算方法. 这种方法可以预测可以转换细胞的分子,为再生医学提供更安全的转录因子替代品.
科学领域:
- 生物技术是生物技术.
- 计算生物学 计算生物学
- 再生医学是一种再生医学.
背景情况:
- 直接重编程 (DR) 将体细胞转化为点细胞,由于瘤发生风险降低,小分子为转录因子 (TF) 提供了更安全的替代方案.
- 确定有效的DR小分子仍然是该领域的一个重大挑战.
研究的目的:
- 介绍DIRECTEUR,一种新的in silico方法,旨在预测能够诱导直接重编程的小分子,从而取代对转录因子的需求.
- 促进发现特定细胞转换的小分子组合,推进再生医学应用.
主要方法:
- 从TF诱导的DR转录组资料中提取DR特征基因.
- 模拟火变体的应用,以识别反映DR诱导TFs基因表达模式的小分子组合.
- 通过预测纤维细胞-神经元和纤维细胞-心肌细胞转换的小分子组合来验证该方法.
主要成果:
- 该DIRECTEUR方法成功地预测了用于将纤维细胞转化为神经元和心肌细胞的小分子组合.
- 预测的分子经过实验验证并与已知这些转换的诱导因子功能相关.
- 计算方法证明了其在识别有效的小分子尾酒的有效性,用于直接重编程.
结论:
- DIRECTEUR提供了一个强大的计算工具,用于发现驱动直接重编程的小分子.
- 这种方法提高了细胞转化用于再生医学的安全性和实用性.
- 代码和数据的可用性促进了该技术的进一步研究和应用.
相关概念视频
01:10Transcription
Overview
Transcription is the process of synthesizing RNA from a DNA sequence by RNA polymerase. It is the first step in producing a protein from a gene sequence. Additionally, many other proteins and regulatory sequences are involved in the proper synthesis of messenger RNA (mRNA). Regulation of transcription is responsible for the differentiation of all the different types of cells and often for the proper cellular response to environmental signals.
Transcription Can Produce Different Kinds...
Transcription is the process of synthesizing RNA from a DNA sequence by RNA polymerase. It is the first step in producing a protein from a gene sequence. Additionally, many other proteins and regulatory sequences are involved in the proper synthesis of messenger RNA (mRNA). Regulation of transcription is responsible for the differentiation of all the different types of cells and often for the proper cellular response to environmental signals.
Transcription Can Produce Different Kinds...
01:09Recombinant DNA
Overview
01:44Complementary DNA
Overview
02:11Reporter Genes
Reporter genes are a type of protein-coding gene that are often tagged to a gene of interest. Once inside a target cell, reporter genes usually produce visually identifiable characteristics like fluorescence and luminescence when expressed along with the gene of interest. Thus, reporter genes “report” the presence or absence of genes of interest in an organism, determine the gene expression pattern, or track the physical location of a DNA segment or protein in the cell.
Commonly used reporter...
Commonly used reporter...
01:17Transcription
Transcription is the synthesis of RNA from a DNA sequence by RNA polymerase. It is the first step in producing a protein from a gene sequence. Additionally, many other proteins and regulatory sequences are involved in correctly synthesizing messenger RNA (mRNA). Transcriptional regulation is responsible for the differentiation of different types of cells and often for the proper cellular response to environmental signals.
Transcription Can Produce Different Kinds of RNA Molecules
In eukaryotes,...
Transcription Can Produce Different Kinds of RNA Molecules
In eukaryotes,...
01:24Methods of Nuclear Reprogramming
Nuclear reprogramming is a process of transforming one cell type into an unrelated cell type by epigenetic changes that alter the cell’s original gene expression pattern. Such epigenetic changes force cells to express a different set of genes, which play a significant role in inducing transformation into other cell types. Nuclear reprogramming offers applications in reproductive cloning for livestock propagation and regenerative medicine — developing patient-specific cells for injury repair.