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相关概念视频

Ribosome Profiling02:24

Ribosome Profiling

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Ribosome profiling or ribo-sequencing is a deep sequencing technique that produces a snapshot of active translation in a cell. It selectively sequences the mRNAs protected by ribosomes to get an insight into a cell’s translation landscape at any given point in time.
Applications of ribosome profiling
Ribosome profiling has many applications, including in vivo monitoring of translation inside a particular organ or tissue type and quantifying new protein synthesis levels.
The technique...
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Pleiotropy01:33

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Pleiotropy is the phenomenon in which a single gene impacts multiple, seemingly unrelated phenotypic traits. For example, defects in the SOX10 gene cause Waardenburg Syndrome Type 4, or WS4, which can cause defects in pigmentation, hearing impairments, and an absence of intestinal contractions necessary for elimination. This diversity of phenotypes results from the expression pattern of SOX10 in early embryonic and fetal development. SOX10 is found in neural crest cells that form melanocytes,...
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相关实验视频

Updated: May 29, 2025

Spatially Compact Arrangement of Larval Zebrafish Sections for Spatial Transcriptomic Analysis
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Spatially Compact Arrangement of Larval Zebrafish Sections for Spatial Transcriptomic Analysis

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在空间转录学中学习表型关联签名与 PASSAGE.

Chen-Kai Guo1,2, Chen-Rui Xia3,4, Guangdun Peng1,2

  • 1Center for Cell Lineage and Development, CAS Key Laboratory of Regenerative Biology, Guangdong Provincial Key Laboratory of Stem Cell and Regenerative Medicine, GIBH-HKU Guangdong-Hong Kong Stem Cell and Regenerative Medicine Research Centre, University of Chinese Academy of Sciences, Guangzhou Institutes of Biomedicine and Health, Chinese Academy of Sciences, Guangzhou, 510530, China.

Small methods
|February 5, 2025
PubMed
概括
此摘要是机器生成的。

空间解析转录组学 (SRT) 分析现在可以使用 PASSAGE,一种新的深度学习框架,识别与表型相关的空间签名. 这种工具有效地描述了复杂组织中的细胞组织,改善了对疾病和生理状态的理解.

关键词:
深度学习是一种深度学习.图表神经网络的神经网络空间签名识别识别方法空间转录学 空间转录学

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An Allele-specific Gene Expression Assay to Test the Functional Basis of Genetic Associations
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科学领域:

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

背景情况:

  • 空间解析转录学 (SRT) 提供了对组织中细胞组织的高分辨率见解.
  • 目前用于SRT的计算工具主要使用无监督方法,忽略了疾病状态等关键样本特征.
  • 需要先进的计算框架,将样本表型集成到空间转录组分析中.

研究的目的:

  • 引入 PASSAGE (表型相关空间签名分析与基于图形的嵌入),这是一个用于表型相关空间签名分析的深度学习框架.
  • 为了使复杂的细胞模式在多个空间切片的表征,结合生理和病理状态.
  • 提供一个强大的计算工具,以促进对组织组织的理解.

主要方法:

  • 开发了一个深度学习框架,名为 PASSAGE.
  • 使用基于图形的嵌入用于空间签名分析.
  • 将表型信息集成到空间转录基因数据的分析中.

主要成果:

  • PASSAGE 在系统基准指标中表现出色.
  • 该框架有效地描述了异构组织切片中与表型相关的空间特征.
  • PASSAGE在现实世界的案例研究中成功识别了复杂的签名.

结论:

  • PASSAGE 是一种强大的深度学习工具,用于复杂组织中的表型相关空间特征分析.
  • 该框架通过整合样本特征来增强空间转录组数据的解释.
  • PASSAGE在空间转录学领域取得了进展,以了解健康和疾病中的组织生物学.