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相关概念视频

Protein Networks02:26

Protein Networks

4.5K
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,...
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Protein Networks02:26

Protein Networks

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Peptide Identification Using Tandem Mass Spectrometry01:33

Peptide Identification Using Tandem Mass Spectrometry

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Tandem mass spectrometry, also known as MS/MS or MS2, is an analytical technique that employs two mass analyzers. Essentially it is a series of mass spectrometers that helps isolate a particular biomolecule and then helps study its chemical properties.
This technique helps gather information regarding the protein from which the peptide was obtained and to study the peptides’ amino acid sequence. Identifying peptides from a complex mixture is an important component of the growing field of...
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Protein-protein Interfaces02:04

Protein-protein Interfaces

14.4K
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...
14.4K
Peptide Bonds02:43

Peptide Bonds

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A peptide bond covalently attaches amino acids through a dehydration reaction. One amino acid's carboxyl group and another amino acid's amino group combine, releasing a water molecule. The resulting bond is the peptide bond. The products that such linkages form are peptides. As more amino acids join this growing chain, the resulting chain is a polypeptide. Each polypeptide has a free amino group at one end. This end has the N-terminal, or the amino-terminal, and the other end has a free...
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StarPepWeb:一个整合性的,基于图表的生物活性的资源.

Christian López1, Roberto Cárdenas1, Longendri Aguilera-Mendoza2

  • 1Colegio de Ciencias e Ingenierías "El Politécnico", Universidad San Francisco de Quito USFQ, Quito 170157, Ecuador.

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概括

StarPepWeb提供了一个统一的平台来分析生物活性,将各种数据集成到一个可搜索的图表中. 这个网络应用程序使访问精选的序列变得民主化,使全面的探索和分析成为可能.

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科学领域:

  • 生物信息学是一种生物信息学.
  • 计算生物学 计算生物学
  • 酸科学 酸科学

背景情况:

  • 生物活性序列正在快速增长,这给组织和分析带来了挑战.
  • 现有的存库通常是孤立的,使用异质元数据,缺乏统一的描述符.
  • 有限的整合性网络服务阻碍了生物活性的可复制和全面的探索.

研究的目的:

  • 介绍StarPepWeb,一个免费可访问的Web应用程序,以民主化访问StarPepDB,一个大型策划的生物活性库.
  • 为整合性生物活性分析提供统一,源追踪和可扩展的平台.
  • 克服获取和分析生物活性数据的障碍.

主要方法:

  • 将来自40个公共数据库的45120个非冗余生物活性序列集成到源追踪图中.
  • 用元数据,物理化学特征和预测的3D结构 (ESMFold) 丰富了图表.
  • 使用ESM-2嵌入和iFeature描述器用于每个,实现元数据意识的过和基于对齐的相似性搜索.

主要成果:

  • 开发了StarPepWeb,这是一个提供元数据意识过,相似性搜索和交互式可视化的Web应用程序.
  • 实现了以微服务为导向的架构,以实现可扩展性,可维护性和可重复的版本下载 (包括Neo4j出口).
  • 提供了一个云托管的框架,克服了独立数据库的部署和专业知识障碍.

结论:

  • StarPepWeb为生物活性的综合分析提供了一个统一,可扩展和用户友好的框架.
  • 该平台民主化了对一个庞大的精心策划的类储存库的访问,促进了研究和发现.
  • StarPepWeb解决了对生物活性探学的综合性和可重复性方法的需求.