Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Concept Videos

Protein Networks02:26

Protein Networks

4.1K
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,...
4.1K
Protein-protein Interfaces02:04

Protein-protein Interfaces

14.0K
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...
14.0K
Protein-Protein Interfaces02:04

Protein-Protein Interfaces

3.9K
3.9K
Protein Complexes with Interchangeable Parts01:57

Protein Complexes with Interchangeable Parts

2.6K
Groups of proteins may form a complex where each protein in this complex has a different role in the overall execution of the complex’s function. Often some of the proteins in the complex can be replaced by a closely related variant to give a complex that contains many of the same components yet is functionally distinct.
The SCF ubiquitin ligase is a protein complex of five individual proteins. This complex attaches ubiquitin to other target proteins to mark them for degradation. In order...
2.6K
Proteomics01:33

Proteomics

8.4K
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...
8.4K

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

Molecular cloning and heterologous expression of an acid-stable endoxylanase gene from Penicillium oxalicum in Trichoderma reesei.

Journal of microbiology and biotechnology·2013
Same author

Increasing gastric juice pH level prior to anti-Helicobacter pylori therapy may be beneficial to the healing of duodenal ulcers.

Experimental and therapeutic medicine·2013
Same author

Inhibitory effect of glutathione on oxidative liver injury induced by dengue virus serotype 2 infections in mice.

PloS one·2013
Same author

Efficacy of tribendimidine against Angiostrongylus cantonensis infection in the mice.

Parasitology research·2013
Same author

Double-bundle anatomical versus single-bundle isometric medial patellofemoral ligament reconstruction for patellar dislocation.

International orthopaedics·2013
Same author

Fatty acid binding proteins FABP9 and FABP10 participate in antibacterial responses in Chinese mitten crab, Eriocheir sinensis.

PloS one·2013

Related Experiment Video

Updated: Oct 8, 2025

Genome-wide Protein-protein Interaction Screening by Protein-fragment Complementation Assay PCA in Living Cells
08:38

Genome-wide Protein-protein Interaction Screening by Protein-fragment Complementation Assay PCA in Living Cells

Published on: March 3, 2015

13.5K

A New Method for Recognizing Protein Complexes Based on Protein Interaction Networks and GO Terms.

Xiaoting Wang1, Nan Zhang1, Yulan Zhao1

  • 1School of Computer Science, Inner Mongolia University, and with Ecological Big Data Engineering Research Center of the Ministry of Education, Hohhot, China.

Frontiers in Genetics
|December 30, 2021
PubMed
Summary

This study introduces a new method to identify protein complexes within noisy protein-protein interaction (PPI) data. The Neighbor Nodes of Proteins (NNP) algorithm improves the accuracy and quantity of identified protein complexes.

Keywords:
GO termsNNPfunction of proteinsprotein complexprotein interaction network

More Related Videos

JUMPn: A Streamlined Application for Protein Co-Expression Clustering and Network Analysis in Proteomics
07:28

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

Published on: October 19, 2021

3.3K
Label-Free Immunoprecipitation Mass Spectrometry Workflow for Large-scale Nuclear Interactome Profiling
11:19

Label-Free Immunoprecipitation Mass Spectrometry Workflow for Large-scale Nuclear Interactome Profiling

Published on: November 17, 2019

16.4K

Related Experiment Videos

Last Updated: Oct 8, 2025

Genome-wide Protein-protein Interaction Screening by Protein-fragment Complementation Assay PCA in Living Cells
08:38

Genome-wide Protein-protein Interaction Screening by Protein-fragment Complementation Assay PCA in Living Cells

Published on: March 3, 2015

13.5K
JUMPn: A Streamlined Application for Protein Co-Expression Clustering and Network Analysis in Proteomics
07:28

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

Published on: October 19, 2021

3.3K
Label-Free Immunoprecipitation Mass Spectrometry Workflow for Large-scale Nuclear Interactome Profiling
11:19

Label-Free Immunoprecipitation Mass Spectrometry Workflow for Large-scale Nuclear Interactome Profiling

Published on: November 17, 2019

16.4K

Area of Science:

  • Bioinformatics
  • Computational Biology
  • Systems Biology

Background:

  • Protein complexes are crucial functional units formed by interacting proteins.
  • Protein-protein interaction (PPI) networks represent these interactions but are often noisy, complicating complex identification.
  • Accurate identification of protein complexes is vital for understanding cellular functions and evolutionary analysis.

Purpose of the Study:

  • To develop a robust method for filtering noise in PPI data.
  • To introduce an algorithm for accurately recognizing protein complexes from PPI networks.
  • To enhance the study of evolutionary relationships through improved protein complex identification.

Main Methods:

  • Proposed the Topology and Semantic Similarity Network (TSSN) method, integrating topological and biological characteristics to construct PPI networks.
  • Developed the Neighbor Nodes of Proteins (NNP) algorithm, which utilizes topological information for protein complex recognition.

Main Results:

  • The TSSN method effectively filters noise from PPI data.
  • The NNP algorithm demonstrates improved accuracy and identifies a greater number of protein complexes compared to existing methods.
  • The findings facilitate more reliable evolutionary analysis.

Conclusions:

  • The TSSN and NNP methods offer a significant advancement in handling noisy PPI data for protein complex identification.
  • This work provides a valuable tool for researchers in bioinformatics and systems biology.
  • The improved identification of protein complexes supports deeper insights into biological systems and evolution.