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-protein Interfaces02:04

Protein-protein Interfaces

14.2K
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...
14.2K
Mouse Models of Cancer Study02:43

Mouse Models of Cancer Study

6.2K
Mice have long served as models for studying human biology and pathology because of their phylogenetic and physiological similarity with humans. They are also easy to maintain and breed in the laboratory, and hence, many inbred strains are now available for research. Studies on mice have contributed immeasurably to our understanding of cancer biology.
The development of transgenic, knockout, and knock-in mice has led to an exponential increase in their use as model organisms in research,...
6.2K
Cancer-Critical Genes I: Proto-oncogenes01:33

Cancer-Critical Genes I: Proto-oncogenes

10.1K
Genes usually encode proteins necessary for the proper functioning of a healthy cell. Mutations can often cause changes to the gene expression pattern, thereby altering the phenotype.
When the function of certain critical genes, especially those involved in cell cycle regulation and cell growth signaling cascades, gets disrupted, it upsets the cell cycle progression. Such cells with unchecked cell cycles start proliferating uncontrollably and eventually develop into tumors.
Such genes that act...
10.1K
Protein Networks02:26

Protein Networks

4.4K
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,...
4.4K

You might also read

Related Articles

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

Sort by
Same author

Gastric cancer surgery in the era of neoadjuvant immunotherapy.

Chinese journal of cancer research = Chung-kuo yen cheng yen chiu·2026
Same author

Comprehensive Benchmarking with Guidelines for Analyzing Transposable Element-derived RNA Expression.

Genomics, proteomics & bioinformatics·2026
Same author

Perioperative serplulimab with neoadjuvant chemotherapy versus perioperative chemotherapy in PD-L1-positive gastric cancer (ASTRUM-006): a randomised, double-blind, multicentre, phase 3 study.

Lancet (London, England)·2026
Same author

Systematic decoding the functional role of human endogenous retrovirus-derived RNAs in medulloblastoma.

Neuro-oncology advances·2026
Same author

Health-related quality of life among Mongolian-speaking women with breast cancer receiving adjuvant endocrine therapy in China: a cross-sectional study.

Journal of patient-reported outcomes·2026
Same author

Comparison of surgical safety among different comprehensive treatment models for adenocarcinoma of esophagogastric junction: a single-center cohort study.

BMC gastroenterology·2026

Related Experiment Video

Updated: Nov 29, 2025

Performing Data Mining And Integrative Analysis Of Biomarker in Breast Cancer Using Multiple Publicly Accessible Databases
07:41

Performing Data Mining And Integrative Analysis Of Biomarker in Breast Cancer Using Multiple Publicly Accessible Databases

Published on: May 17, 2019

9.3K

PINA 3.0: mining cancer interactome.

Yang Du1, Meng Cai2, Xiaofang Xing3

  • 1Center for Cancer Bioinformatics, Key Laboratory of Carcinogenesis and Translational Research (Ministry of Education), Peking University Cancer Hospital & Institute, Beijing 100142, China.

Nucleic Acids Research
|November 24, 2020
PubMed
Summary
This summary is machine-generated.

The updated Protein Interaction Network Analysis (PINA) platform (version 3.0) integrates human interactome data with cancer-specific transcriptomes and proteomes. This tool aids in identifying cancer drivers, biomarkers, and therapeutic targets by analyzing protein-protein interactions (PPIs) in various cancer types.

More Related Videos

Author Spotlight: Unveiling the Role of TMOD3 in Platinum Resistance and Immune Infiltration in Ovarian Cancer
09:40

Author Spotlight: Unveiling the Role of TMOD3 in Platinum Resistance and Immune Infiltration in Ovarian Cancer

Published on: August 2, 2024

3.0K
Mapping Dysfunctional Protein-Protein Interactions in Disease
09:39

Mapping Dysfunctional Protein-Protein Interactions in Disease

Published on: October 24, 2025

273

Related Experiment Videos

Last Updated: Nov 29, 2025

Performing Data Mining And Integrative Analysis Of Biomarker in Breast Cancer Using Multiple Publicly Accessible Databases
07:41

Performing Data Mining And Integrative Analysis Of Biomarker in Breast Cancer Using Multiple Publicly Accessible Databases

Published on: May 17, 2019

9.3K
Author Spotlight: Unveiling the Role of TMOD3 in Platinum Resistance and Immune Infiltration in Ovarian Cancer
09:40

Author Spotlight: Unveiling the Role of TMOD3 in Platinum Resistance and Immune Infiltration in Ovarian Cancer

Published on: August 2, 2024

3.0K
Mapping Dysfunctional Protein-Protein Interactions in Disease
09:39

Mapping Dysfunctional Protein-Protein Interactions in Disease

Published on: October 24, 2025

273

Area of Science:

  • Bioinformatics
  • Computational Biology
  • Cancer Research

Background:

  • Protein-protein interactions (PPIs) are fundamental to cellular functions and disease mechanisms.
  • Understanding cancer-specific PPIs is crucial for deciphering tumorigenesis and identifying therapeutic strategies.

Purpose of the Study:

  • To update the Protein Interaction Network Analysis (PINA) platform to version 3.0.
  • To integrate diverse omics data (interactome, RNA-seq, proteomes) for cancer-specific analysis.
  • To develop new analytical tools for characterizing PPI networks within specific cancer contexts.

Main Methods:

  • Integration of a unified human interactome with RNA-seq transcriptomes and mass spectrometry-based proteomes across multiple cancer types.
  • Development of analytical utilities for inferring expression-specific proteins, identifying prognostic biomarkers, cancer drivers, and therapeutic targets.
  • Implementation of a new interactive web interface for network visualization and user-driven investigation of PPIs.

Main Results:

  • PINA 3.0 provides a comprehensive resource for cancer-type-specific PPI network analysis.
  • New utilities enable the identification of key proteins, biomarkers, and potential therapeutic targets relevant to specific cancers.
  • The platform facilitates the discovery of co-expressing interacting protein pairs across different cancer types.

Conclusions:

  • The enhanced PINA 3.0 platform offers powerful tools for exploring the roles of protein-protein interactions in cancer.
  • It supports the identification of novel therapeutic targets and biomarkers by integrating multi-omics data.
  • PINA 3.0 facilitates a deeper understanding of cancer biology through interactive network analysis.