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相关概念视频

DNA Microarrays02:34

DNA Microarrays

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Microarrays are high-throughput and relatively inexpensive assays that can be automated to analyze large quantities of data at a time. They are used in genome-wide studies to compare gene or protein expression under two varied conditions, such as healthy and diseased states. Microarrays consist of glass or silica slides on which probe molecules are covalently attached through surface functionalization. Most commonly, the slides are prepared through the chemisorption of silanes to silica...
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相关实验视频

Updated: Sep 13, 2025

Spatial Profiling of Protein and RNA Expression in Tissue: An Approach to Fine-Tune Virtual Microdissection
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空间转录学数据中的文物:它们的检测,重要性,流行率和预防.

Erich Kummerfeld1, Leland Williams1, Yinzhao Wang1

  • 1Institute for Health Informatics, University of Minnesota, 8-101 Phillips-Wangensteen Building, 516 Delaware St. SE, Minneapolis, MN 55455, United States.

Briefings in bioinformatics
|August 1, 2025
PubMed
概括
此摘要是机器生成的。

数据文物可以扭曲空间转录学结果. 我们开发了边界,位置和边缘文物检测 (BLADE),这是识别和删除常见文物的自动化方法,确保更可靠的转录数据.

关键词:
这就是Visium Visium.细胞衰老 细胞衰老建模 建模模型 建模模型质量控制质量控制质量控制空间转录学 空间转录学

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科学领域:

  • 基因组学就是基因组学.
  • 生物信息学是一种生物信息学.
  • 计算生物学 计算生物学

背景情况:

  • 空间转录学技术使得在组织背景下进行基因表达分析成为可能.
  • 数据工件,如边界效应和批次故障,可能会损害空间转录学发现的准确性.
  • 现有的质量控制方法可能无法在不同平台上充分解决这些特定的文物类型.

研究的目的:

  • 开发和验证一个自动化的,跨平台的方法来检测和删除空间转录学中的数据文物.
  • 解决常见的工件,包括边界效应,组织边缘效应和位置批次故障.
  • 提高空间转录学数据分析的可靠性和可重复性.

主要方法:

  • 开发边界,位置和边缘人工物检测 (BLADE),一套自动化统计方法.
  • 将BLADE应用于各种空间转录组学平台,包括Visium和CosMx.
  • 使用37个10xVisium样本库对BLADE的评估,这些样本来自人类和小鼠的肝脏和脂肪组织.

主要成果:

  • BLADE成功检测并能够消除边界效应,组织边缘效应和位置批次故障.
  • 在评估的空间转录学样本中,发现文物普遍存在并具有显著的影响.
  • 该研究表明,在空间转录学质量控制中,对强大的文物检测的需求至关重要.

结论:

  • BLADE提供了一种新的自动化解决方案,用于识别和减轻空间转录数据中的常见文物.
  • 开发的软件是跨平台兼容和公开可用的,促进在研究界更广泛的采用.
  • 实施像BLADE这样的文物检测方法对于确保空间转录学发现的完整性至关重要.