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相关概念视频

mRNA Stability and Gene Expression02:51

mRNA Stability and Gene Expression

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The structure and stability of mRNA molecules regulates gene expression, as mRNAs are a key step in the pathway from gene to protein. In eukaryotes, the half-life of mRNA varies from a few minutes up to several days. mRNA stability is essential in growth and development. The absence of the proteins regulating its stability, such as tristetraprolin in mice, can cause systemic issues, including bone marrow overgrowth, inflammation, and autoimmunity.
Cis-acting Elements involved in mRNA stability
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Cell Specific Gene Expression01:58

Cell Specific Gene Expression

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General Transcription Factors01:30

General Transcription Factors

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Tissue-specific transcription factors contribute to diverse cellular functions in mammals. For example, the gene for beta globin, a major component of hemoglobin, is present in all cells of the body. However, it is only expressed in red blood cells because the transcription factors that can bind to the promoter sequences of the beta globin gene are only expressed in these cells. Tissue-specific transcription factors also ensure that mutations in these factors may impair only the function of...
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What is Gene Expression?01:42

What is Gene Expression?

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Overview
Gene expression is the process in which DNA directs the synthesis of functional products, that is, proteins. Cells can regulate gene expression at various stages. It allows organisms to generate different cell types and enables cells to adapt to internal and external factors.
Genetic Information Flows from DNA to RNA to Protein
A gene is a stretch of DNA that serves as the blueprint for functional RNAs and proteins. Since DNA is made up of nucleotides and proteins consist of amino...
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Regulation of Expression at Multiple Steps01:23

Regulation of Expression at Multiple Steps

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The gene expression in cells is regulated at different stages: (i) transcription, (ii) RNA processing, (iii) RNA localization, and (iv) translation. Transcriptional regulation is mediated by regulatory proteins such as transcription factors, activators, or repressors—these control gene expression by initiating or inhibiting the transcription of genes. Once a precursor or pre-mRNA is produced, it undergoes post-transcriptional modification, including 5' capping, splicing, and the...
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FaStaNMF:一种快速稳定的非负矩阵因子对基因表达的分解.

Michael D Sweeney, Luke A Torre-Healy, Virginia L Ma

    IEEE/ACM transactions on computational biology and bioinformatics
    |July 19, 2023
    PubMed
    概括

    通过提高非负矩阵因子化 (NMF) 结果的稳定性和准确性,FaStaNMF增强了基因表达解卷. 这种计算方法可以在没有昂贵的实验程序的情况下,对复杂的生物样本提供可重现的见解.

    科学领域:

    • 计算生物学是一种计算生物学.
    • 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:

    • 混合细胞种群中的基因表达分析产生了有限的组织特异信息.
    • In silico解卷提供了一个成本效益高的替代品,用于细胞分类或单细胞测序,以提取细胞类型特定的表达数据.
    • 非负矩阵因子化 (NMF) 是基因表达数据的有价值的解卷技术,其特点是其非负性约束和在没有先前组件知识的情况下解卷的能力.

    研究的目的:

    • 引入FaStaNMF,这是一种新的方法,旨在提高基因表达解卷的非负矩阵因子化 (NMF) 的稳定性,准确性和速度.
    • 应对非负矩阵分解 (NMF) 的挑战,不保证全球唯一的解决方案,这会影响可重现性.
    • 为复杂生物样本的基因表达数据提供可复制和准确分析的计算工具.

    主要方法:

    • 开发FaStaNMF,一个非负矩阵分解 (NMF) 算法,优先考虑全球稳定性,准确性和计算速度.
    • 将FaStaNMF应用于具有已知的基本真相的四个不同的数据集,利用公开可用的数据和RNAGinesis模拟基础设施.
    • 评估FaStaNMF与标准的非负矩阵因子化 (NMF) 方法进行复制性.

    主要成果:

    • 在速度,准确性和稳定性方面,FaStaNMF与标准的非负矩阵因子分解 (NMF) 方法相比,表现出了有利的比较.

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  • 该方法实现了增强的整体稳定性,这对于实验间和实验室间的可重复性至关重要.
  • 在各种数据集中验证了性能,证实了它的稳定性.

    • 结论:

    • 在基因表达分析的计算解卷方面,FaStaNMF提供了显著的进步.
    • 该方法提供了一种稳定,准确和快速的方法来提取细胞类型特定的表达特征.
    • 预计FaStaNMF将广泛适用于各种生物环境,包括瘤/免疫微环境和其他与疾病相关的样本.