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相关概念视频

Maintenance of the ES Cell State01:14

Maintenance of the ES Cell State

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The cells of the blastocyst inner cell mass only remain pluripotent for a short time. This state of pluripotency and self-renewal can be maintained in embryonic stem (ES) cell culture by adding specific chemicals or growth factors to ensure the cells can continue dividing and later differentiate into different cell types. In some cases, the cells are grown on a feeder layer of differentiated cells, which provides the growth factors and extracellular matrix components necessary for stem cell...
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Replicative Cell Senescence02:15

Replicative Cell Senescence

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Replicative cell senescence is a property of cells that allows them to divide a finite number of times throughout the organism's lifespan while preventing excessive proliferation. Replicative senescence is associated with the gradual loss of the telomere — short, repetitive DNA sequences found at the end of the chromosomes. Telomeres are bound by a group of proteins to form a protective cap on the ends of chromosomes. Embryonic stem cells express telomerase — an enzyme that adds...
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Non-equilibrium in the Cell01:16

Non-equilibrium in the Cell

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An important concept in studying metabolism and energy is that of chemical equilibrium. Most chemical reactions are reversible. They can proceed in both directions, releasing energy into their environment in one direction, and absorbing it from the environment in the other direction. The same is true for the chemical reactions involved in cell metabolism, such as the breaking down and building up of proteins into and from individual amino acids, respectively. Reactants within a closed system...
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The Cell Cycle Control System01:28

The Cell Cycle Control System

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The cell cycle regulation directs how a cell proceeds from one phase to the next and begins mitosis. The cell cycle control system includes intracellular regulatory molecules and external triggers. They provide "stop" or "advance" signals and operate at specific cell cycle stages termed checkpoints to ensure that a particular process is completed before the cell advances to the next phase.
Cyclins and cyclin-dependent kinases (Cdks) are the primary cell cycle regulators and...
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Somatic to iPS Cell Reprogramming01:29

Somatic to iPS Cell Reprogramming

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Reprogramming alters the gene expression in somatic cells, transforming them into induced pluripotent stem (iPS) cells over several generations. Scientists can reprogram cells by introducing genes for four transcription factors—Oct4, Sox2, Klf4, and c-Myc (OSKM) by viral or non-viral methods. These factors are also known as Yamanaka factors after Shinya Yamanaka, who first generated iPS cells using mouse skin cells. Yamanaka was awarded the Nobel Prize in Physiology or Medicine in 2012...
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Entropy within the Cell01:22

Entropy within the Cell

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A living cell's primary tasks of obtaining, transforming, and using energy to do work may seem simple. However, the second law of thermodynamics explains why these tasks are harder than they appear. None of the energy transfers in the universe are completely efficient. In every energy transfer, some amount of energy is lost in a form that is unusable. In most cases, this form is heat energy. Thermodynamically, heat energy is defined as the energy transferred from one system to another that...
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相关实验视频

Updated: Jun 7, 2025

Reconstitution of Cell-cycle Oscillations in Microemulsions of Cell-free Xenopus Egg Extracts
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Reconstitution of Cell-cycle Oscillations in Microemulsions of Cell-free Xenopus Egg Extracts

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一SC:一个用于回顾细胞状态转换的计算平台.

Da Peng1, Patrick Cahan1,2,3

  • 1Department of Biomedical Engineering, Johns Hopkins University, Baltimore, MD 21205, United States.

Bioinformatics (Oxford, England)
|November 21, 2024
PubMed
概括

一个SC模拟细胞状态转换使用在单细胞RNA测序数据上训练的计算模型. 这个平台准确地预测了细胞命运的决定,并总结了发育轨迹,有助于生物研究.

科学领域:

  • 发育生物学是发展生物学.
  • 癌症生物学 癌症生物学
  • 细胞命运工程 细胞命运工程
  • 计算生物学是一种计算生物学.

背景情况:

  • 细胞状态转换的计算建模对于in silico扰动实验至关重要.
  • 单细胞RNA测序 (scRNA-seq) 提供了细胞状态的高分辨率时间快照.
  • 现有的方法往往难以忠实地模仿真正的生物系统.

研究的目的:

  • 介绍OneSC,一个模拟细胞状态转换的平台.
  • 为了生成精确反映生物细胞命运决定的布尔网络.
  • 为了验证平台使用小鼠骨髓原体的分化数据.

主要方法:

  • 开发了OneSC,这是一个使用随机微分方程和监管网络的Python包.
  • 从scRNA-seq数据推断出一个核心转录因子 (TF) 网络.
  • 在推断网络的 silico 干扰中执行.

主要成果:

  • 一个SC成功模拟了小鼠骨髓质原始体的分化轨迹.
  • 该平台生成了合成单细胞表达特征,模仿了红细胞,巨细胞,颗粒细胞和单细胞的命运.
  • 在 silico TF 扰动准确地预测了实验细胞命运偏差.

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Reusable Single Cell for Iterative Epigenomic Analyses
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Reusable Single Cell for Iterative Epigenomic Analyses

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相关实验视频

Last Updated: Jun 7, 2025

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Reconstitution of Cell-cycle Oscillations in Microemulsions of Cell-free Xenopus Egg Extracts

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A Versatile Automated Platform for Micro-scale Cell Stimulation Experiments
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结论:

  • OneSC提供了一个强大的平台来建模细胞状态转换和预测TF扰动效应.
  • 该工具有助于理解和设计细胞命运决策.
  • 一个SC促进快速和成本效益的体实验.