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The extracellular matrix or ECM holds cells together to form a tissue and allows the cells within the tissue to communicate. ECM comprises proteins such as fibronectin, collagen, laminin, etc. The most abundant protein in this space is collagen. Collagen fibers are interwoven with carbohydrate-containing protein molecules called proteoglycans. ECM allows cell migration and provides a structural scaffold at cell adhesion that anchors the cell when the extracellular matrix proteins interact with...
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Hormones—or any molecule that binds to a receptor, known as a ligand—that are lipid-insoluble (water-soluble) are not able to diffuse across the cell membrane. In order to be able to affect a cell without entering it, these hormones bind to receptors on the cell membrane. When a first messenger, a hormone, binds to a receptor, a signal cascade is set off, causing second messengers, proteins inside the cell, to become activated, resulting in downstream effects.
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CCPlotR:用于可视化细胞与细胞相互作用的R包.

Sarah Ennis1,2,3, Pilib Ó Broin1,2, Eva Szegezdi1,3

  • 1The SFI Centre for Research Training in Genomics Data Science, Galway, H91 TK33, Ireland.

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概括

CCPlotR是一个新的R包,可视化从单细胞基因表达数据中预测的细胞-细胞相互作用. 它为研究人员生成准备发布的数据,如热图和网络图.

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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:

  • 了解细胞与细胞之间的相互作用在生物研究中至关重要.
  • 现有的工具往往需要复杂的数据处理来实现可视化.
  • 单细胞基因表达数据提供了一种强大的方法来推断这些相互作用.

研究的目的:

  • 介绍CCPlotR,一个用于可视化细胞与细胞相互作用的R包.
  • 提供一个用户友好的工具,接受预测的交互数据作为输入.
  • 为了产生多样化的,准备出版的生物解释数据.

主要方法:

  • CCPlotR是一个R包,它将预测的细胞相互作用表作为输入.
  • 它利用来自其他预测工具的单细胞基因表达数据输出.
  • 该软件包可生成各种图形类型,包括热图,点图,圆圈图和网络图.

主要成果:

  • CCPlotR成功地生成了多种类型的细胞相互作用可视化.
  • 该套件旨在简单易用,只需要交互预测数据.
  • 生成的数据已准备出版,有助于解释生物数据.

结论:

  • 对于研究细胞与细胞相互作用的研究人员来说,CCPlotR是一个宝贵的资源.
  • 该包简化了可视化过程,使复杂的数据更容易获得.
  • 它支持对单细胞基因表达数据进行分析,以获得生物学见解.