Jove
Visualize
联系我们
JoVE
x logofacebook logolinkedin logoyoutube logo
关于 JoVE
概览领导团队博客JoVE 帮助中心
作者
出版流程编辑委员会范围与政策同行评审常见问题投稿
图书馆员
用户评价订阅访问资源图书馆顾问委员会常见问题
研究
JoVE JournalMethods CollectionsJoVE Encyclopedia of Experiments存档
教育
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab Manual教师资源中心教师网站
使用条款与条件
隐私政策
政策

相关概念视频

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
Proteomics01:33

Proteomics

7.0K
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...
7.0K
Conservation of Protein Domains Over Different Proteins02:26

Conservation of Protein Domains Over Different Proteins

10.6K
Protein domains are small structurally independent units that are part of a single amino acid chain.  Although these domains are often structurally independent, they may rely on synergistic effects to perform their functions as part of a larger protein. Protein domains may be conserved within the same organism, as well as across different organisms.
A limited set of protein domains often duplicate and recombine during evolution. These domains can be organized in different combinations to...
10.6K
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
Genome Annotation and Assembly03:36

Genome Annotation and Assembly

18.7K
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.
18.7K
Protein and Protein Structure02:15

Protein and Protein Structure

77.4K
Proteins are one of the most abundant organic molecules in living systems and have the most diverse range of functions of all macromolecules. Proteins may be structural, regulatory, contractile, or protective. They may serve in transport, storage, or membranes; or they may be toxins or enzymes. Their structures, like their functions, vary greatly. They are all, however, amino acid polymers arranged in a linear sequence.
A protein's shape is critical to its function. For example, an enzyme...
77.4K

您也可能阅读

相关文章

通过共同作者、期刊和引用图与本文相关的文章。

排序
Same author

Evaluating the role of pretraining dataset size and diversity on single-cell foundation model performance.

Nature methods·2026
Same author

Scalable and cost-efficient custom gene library assembly from oligopools.

Science advances·2026
Same author

Closing the loop: Experimentally validated methods in artificial intelligence-driven protein design.

Current opinion in structural biology·2026
Same author

Sequence Display enables large-scale sequence-activity datasets for rapid protein evolution.

Nature biotechnology·2026
Same author

Trainable subnetworks reveal insights into structure knowledge organization in protein language models.

PLoS computational biology·2026
Same author

Improving atlas-scale single-cell annotation models with hierarchical cross-entropy loss.

Nature computational science·2026
Same journal

conMItion: an R package adjusting confounding factors for associations in multi-omics.

Bioinformatics (Oxford, England)·2026
Same journal

SpaMFG: a Spatial Multi-omics Integration Method based on Feature Grouping.

Bioinformatics (Oxford, England)·2026
Same journal

CSCN: Inference of Cell-Specific Causal Networks Using Single-Cell RNA-Seq Data.

Bioinformatics (Oxford, England)·2026
Same journal

Sparse CCA-Based Mediation Analysis with High-Dimensional Exposures and Mediators.

Bioinformatics (Oxford, England)·2026
Same journal

Enhancing Cross-Context Generalization in Drug Perturbation Prediction with a Multimodal Conditional Diffusion Framework.

Bioinformatics (Oxford, England)·2026
Same journal

Primer Design through Submodular Function Estimation.

Bioinformatics (Oxford, England)·2026
查看所有相关文章

相关实验视频

Updated: May 13, 2025

A Protocol for Computer-Based Protein Structure and Function Prediction
16:41

A Protocol for Computer-Based Protein Structure and Function Prediction

Published on: November 3, 2011

68.4K

ProtNote:一种用于蛋白质功能注释的多模式方法.

Samir Char1, Nathaniel Corley2, Sarah Alamdari3

  • 1Microsoft Cloud & AI, Microsoft, Redmond, WA 98052, United States.

Bioinformatics (Oxford, England)
|April 15, 2025
PubMed
概括
此摘要是机器生成的。

新的深度学习模型ProtNote使用文本预测蛋白质功能,即使是新的. 这促进了蛋白质生物学的进步,使灵活的功能发现能够超越训练数据.

更多相关视频

Annotation of Plant Gene Function via Combined Genomics, Metabolomics and Informatics
08:09

Annotation of Plant Gene Function via Combined Genomics, Metabolomics and Informatics

Published on: June 17, 2012

19.6K
An Integrated Approach for Microprotein Identification and Sequence Analysis
09:37

An Integrated Approach for Microprotein Identification and Sequence Analysis

Published on: July 12, 2022

3.3K

相关实验视频

Last Updated: May 13, 2025

A Protocol for Computer-Based Protein Structure and Function Prediction
16:41

A Protocol for Computer-Based Protein Structure and Function Prediction

Published on: November 3, 2011

68.4K
Annotation of Plant Gene Function via Combined Genomics, Metabolomics and Informatics
08:09

Annotation of Plant Gene Function via Combined Genomics, Metabolomics and Informatics

Published on: June 17, 2012

19.6K
An Integrated Approach for Microprotein Identification and Sequence Analysis
09:37

An Integrated Approach for Microprotein Identification and Sequence Analysis

Published on: July 12, 2022

3.3K

科学领域:

  • 分子生物学分子生物学
  • 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:

  • 蛋白质序列功能关系对于蛋白质生物学和工程学至关重要.
  • 已知蛋白质序列中只有不到1%的功能经过实验验证.
  • 目前用于蛋白质功能预测的深度学习模型仅限于训练功能.

研究的目的:

  • 介绍ProtNote,一种用于蛋白质功能预测的多式深度学习模型.
  • 使用自由形式文本实现监督和零射击蛋白质功能预测.
  • 将预测推广到未见的和新型蛋白质功能.

主要方法:

  • 开发了一种多式联机深度学习模型,命名为ProtNote.
  • 杆式自由形式文本用于蛋白质功能预测.
  • 评估监督和零射击任务的性能,包括新的基因本体学和酶委员会数量预测.

主要成果:

  • 在其训练套件上,ProtNote实现了近乎最先进的性能.
  • 在零射击环境中,ProtNote有效地将未见的和新的蛋白质功能概括为零射击.
  • 在预测新型基因本体学和酶委员会数字方面,ProtNote的表现优于基线模型,捕捉了细微的序列功能关系.

结论:

  • ProtNote通过允许不受限制的自由文本输入来增强蛋白质功能发现.
  • 该模型解锁了以前由于预定义标签的限制而无法访问的生物用例.
  • ProtNote 是一个有价值的工具,用于导航蛋白质生物学和工程的动态景观.