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相关概念视频

Proteomics01:33

Proteomics

7.2K
A proteome is the entire set of proteins that a cell type produces. We can study proteomes using the knowledge of genomes because genes code for mRNAs, and the mRNAs encode proteins. Although mRNA analysis is a step in the right direction, not all mRNAs are translated into proteins.
Proteomics is the study of proteomes' function. It involves the large-scale systematic study of the proteome to denote the protein complement expressed by a genome. Scientist Mark Wilkins coined the term...
7.2K
Protein Networks02:26

Protein Networks

3.9K
An organism can have thousands of different proteins, and these proteins must cooperate to ensure the health of an organism. Proteins bind to other proteins and form complexes to carry out their functions. Many proteins interact with multiple other proteins creating a complex network of protein interactions.
These interactions can be represented through maps depicting protein-protein interaction networks, represented as nodes and edges. Nodes are circles that are representative of a protein,...
3.9K
Ribosome Profiling02:24

Ribosome Profiling

3.5K
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...
3.5K
Protein-protein Interfaces02:04

Protein-protein Interfaces

12.4K
Many proteins form complexes to carry out their functions, making protein-protein interactions (PPIs) essential for an organism's survival. Most PPIs are stabilized by numerous weak noncovalent chemical forces. The physical shape of the interfaces determines the way two proteins interact. Many globular proteins have closely-matching shapes on their surfaces, which form a large number of weak bonds. Additionally, many PPIs occur between two helices or between a surface cleft and a...
12.4K

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相关实验视频

Updated: May 28, 2025

JUMPn: A Streamlined Application for Protein Co-Expression Clustering and Network Analysis in Proteomics
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JUMPn: A Streamlined Application for Protein Co-Expression Clustering and Network Analysis in Proteomics

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ProteoArk:一个为生物学家提供的一式蛋白质组学数据分析和可视化工具.

Mahammad Nisar1, Sreelakshmi Pathappillil Soman2, Sourav Sreelan1

  • 1Centre for Integrative Omics Data Science (CIODS), Yenepoya (Deemed to be University), Mangalore, Karnataka 575018, India.

Journal of proteome research
|February 10, 2025
PubMed
概括

ProteoArk是一个用户友好的网络工具,用于质谱蛋白质组学数据分析. 它为差异表达,功能丰富和可视化提供了全面的管道,简化了研究人员复杂的生物信息工作流.

关键词:
生物信息学工具 生物信息学工具数据分析数据分析数据分析数据可视化数据可视化质谱测量质谱测量质谱测量质量测量质谱测量质量测量质量测量质量测量质量测量质量测量质量测量质量测量质量测量质量测量质量测量质量测量质量测量质量测量质量测量质量测量质量测量质量测量质量测量质量测量质量测量蛋白质组学 蛋白质组学网络应用程序 网络应用程序

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Mass Spectrometry-Based Proteomics Analyses Using the OpenProt Database to Unveil Novel Proteins Translated from Non-Canonical Open Reading Frames
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Mass Spectrometry-Based Proteomics Analyses Using the OpenProt Database to Unveil Novel Proteins Translated from Non-Canonical Open Reading Frames

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Investigating Protein Sequence-structure-dynamics Relationships with Bio3D-web
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Investigating Protein Sequence-structure-dynamics Relationships with Bio3D-web

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相关实验视频

Last Updated: May 28, 2025

JUMPn: A Streamlined Application for Protein Co-Expression Clustering and Network Analysis in Proteomics
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JUMPn: A Streamlined Application for Protein Co-Expression Clustering and Network Analysis in Proteomics

Published on: October 19, 2021

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Mass Spectrometry-Based Proteomics Analyses Using the OpenProt Database to Unveil Novel Proteins Translated from Non-Canonical Open Reading Frames
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Mass Spectrometry-Based Proteomics Analyses Using the OpenProt Database to Unveil Novel Proteins Translated from Non-Canonical Open Reading Frames

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Investigating Protein Sequence-structure-dynamics Relationships with Bio3D-web
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Investigating Protein Sequence-structure-dynamics Relationships with Bio3D-web

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科学领域:

  • 蛋白质组学是指蛋白质组学.
  • 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:

  • 基于质谱的蛋白质组学产生了大型数据集,需要专门的分析工具.
  • 现有的工具往往缺乏集成,要求用户结合多个软件包.
  • 简化蛋白质组学数据分析对于高效的生物发现至关重要.

研究的目的:

  • 开发ProteoArk,一个统一的基于Web的平台,用于全面的蛋白质组学数据分析和可视化.
  • 为无标签和标记 (SILAC/iTRAQ/TMT) 质谱数据提供可访问的计算管道.
  • 为了简化复杂的分析,包括差异表达,功能丰富和数字生成对于具有基本生物信息学技能的研究人员.

主要方法:

  • ProteoArk集成了四个主要分析部分:数据处理,微分表达,功能丰富和可视化.
  • 该平台支持从Proteome Discoverer,MaxQuant和MSFragger搜索结果的后处理.
  • 功能性丰富包括基因本体学,蛋白质与蛋白质相互作用,以及通过各种统计测试进行途径分析.

主要成果:

  • ProteoArk提供了用户友好的界面,用于分析无标签和标记的蛋白质组学数据.
  • 该工具通过单次点击便于编写手稿的图形生成 (PCA,热图,火山图).
  • 它简化了复杂的工作流程,使先进的蛋白质组学分析可供具有基本生物信息学技能的用户使用.

结论:

  • ProteoArk为基于质谱的蛋白质组学数据分析提供了一个强大的,集成的和可访问的解决方案.
  • 该平台简化了数据解释和可视化,加速了生物洞察力.
  • 免费在线和通过Docker提供,ProteoArk提高了先进的蛋白质组学工具的可访问性.