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相关概念视频

Cell Specific Gene Expression01:58

Cell Specific Gene Expression

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Multicellular organisms contain a variety of structurally and functionally distinct cell types, but the DNA in all the cells originated from the same parent cells. The differences in the cells can be attributed to the differential gene expression. Liver cells, whose functions include detoxification of blood, production of bile to metabolize fats, and synthesis of proteins essential for metabolism, must express a specific set of genes to perform their functions. Gene expression also varies with...
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Cell Lines01:16

Cell Lines

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A cell line is a population of cells grown in vitro that can be subcultured over several generations. Normal cells cease to divide after a certain number of cell divisions, a process known as replicative senescence. This number, called the Hayflick limit, was conceptualized by Leonard Hayflick in 1961 when he observed that fetal cells grown in culture could only divide 40-60 times. This limit is due to the shortening of the telomeres during each round of cell division, preventing cell division...
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Overview of Cell Signaling01:23

Overview of Cell Signaling

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Despite the protective membrane that separates a cell from the environment, cells need the ability to detect and respond to environmental changes. Additionally, cells often need to communicate with one another. Unicellular and multicellular organisms use a variety of cell signaling mechanisms to communicate with the environment.
Cells respond to many types of information, often through receptor proteins positioned on the membrane. For example, skin cells respond to and transmit touch...
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Genomics02:02

Genomics

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Genomics is the science of genomes: it is the study of all the genetic material of an organism. In humans, the genome consists of information carried in 23 pairs of chromosomes in the nucleus, as well as mitochondrial DNA. In genomics, both coding and non-coding DNA is sequenced and analyzed. Genomics allows a better understanding of all living things, their evolution, and their diversity. It has a myriad of uses: for example, to build phylogenetic trees, to improve productivity and...
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Genome Annotation and Assembly03:36

Genome Annotation and Assembly

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The genome refers to all of the genetic material in an organism. It can range from a few million base pairs in microbial cells to several billion base pairs in many eukaryotic organisms. Genome assembly refers to the process of taking the DNA sequencing data and putting it all back together in a correct order to create a close representation of the original genome. This is followed by the identification of functional elements on the newly assembled genome, a process called genome annotation.
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IP3/DAG Signaling Pathway01:11

IP3/DAG Signaling Pathway

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Membrane lipids such as phosphatidylinositol (PI) are precursors for several membrane-bound and soluble second messengers. Specific kinases phosphorylate PI and produce phosphorylated inositol phospholipids. One such inositol phospholipids are the  phosphatidylinositol-4,5 bisphosphate [PI(4,5)P2], present in the inner half of the lipid bilayer. Upon ligand binding, GPCR stimulates Gq proteins to turn on phospholipase Cꞵ. Activated phospholipase Cꞵ cleaves PI(4,5)P2 and...
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相关实验视频

Updated: Jul 10, 2025

Development of Compendium for Esophageal Squamous Cell Carcinoma
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Development of Compendium for Esophageal Squamous Cell Carcinoma

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细胞GO:一种基于深度学习的新框架和网络服务器,用于细胞类型特定的基因功能解释.

Peilong Li1, Junfeng Wei1, Ying Zhu1

  • 1State Key Laboratory of Medical Neurobiology, MOE Frontiers Center for Brain Science, Institutes of Brain Science and Department of Neurosurgery, Huashan Hospital, Fudan University, Shanghai 200032, China.

Briefings in bioinformatics
|November 23, 2023
PubMed
概括
此摘要是机器生成的。

通过识别特定于细胞类型的活性通路,CellGO增强了omics数据的解释. 该工具利用可见神经网络 (VNN) 和单细胞基因表达来进行精确的生物背景分析.

关键词:
基因本体学 基因本体学人工神经网络的人工神经网络细胞类型特定的途径分析.疾病风险基因 疾病风险基因基因功能分析 基因功能分析

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Defining Gene Functions in Tumorigenesis by Ex vivo Ablation of Floxed Alleles in Malignant Peripheral Nerve Sheath Tumor Cells
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Author Spotlight: Investigating the Role of Repetitive DNA Misregulation in Cancer Initiation and Immunotherapy Resistance
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相关实验视频

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Defining Gene Functions in Tumorigenesis by Ex vivo Ablation of Floxed Alleles in Malignant Peripheral Nerve Sheath Tumor Cells
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科学领域:

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

背景情况:

  • 解释奥米克数据需要理解特定生物背景下的基因功能.
  • 目前的途径分析工具往往缺乏组织或细胞类型的特异性.
  • 识别细胞类型特定的基因活性对于生物学见解至关重要.

研究的目的:

  • 开发一种新的计算工具,CellGO,用于细胞类型特定的途径分析.
  • 解决现有工具在纳入生物背景方面的局限性.
  • 为了能够在单细胞水平上准确识别活性通路.

主要方法:

  • 利用可见神经网络 (VNN) 和单细胞基因表达数据.
  • 开发了细胞类型特定基因通路活动的评分系统.
  • 综合途径社区分析和驱动基因和细胞类型的识别.

主要成果:

  • 细胞GO成功地从混合细胞类型标记物中识别出特定于细胞类型的活性通路.
  • 在识别受基因淘汰影响的细胞类型和途径方面表现出优越性.
  • 展示了推断细胞类型特异性疾病发病因子风险基因的能力.

结论:

  • 细胞GO为细胞类型特定的途径分析提供了一种多功能且易于使用的解决方案.
  • 该工具增强了对omics数据的生物学解释.
  • CellGO可以作为一个Python包,具有用于广泛研究应用的Web界面.