Workshop on Protein-Protein Interaction (PPI) Network Design and Structure
Connecting Proteins, Unveiling Pathways, Advancing Science
Skills you will gain:
About Program:
The workshop on Protein-Protein Interaction (PPI) Network Design and Structure is crafted for students, researchers, and professionals in the life sciences, biotechnology, and pharmaceutical industries. It emphasizes the significance of PPI networks in understanding cellular processes, signaling pathways, and disease mechanisms. Participants will gain a comprehensive understanding of bioinformatics tools used for PPI network construction, analysis, and functional annotation to drive innovations in therapeutic target identification and drug development.
Aim: To provide participants with the theoretical foundation and practical skills to construct, analyze, and interpret protein-protein interaction networks, fostering advancements in molecular biology, disease research, and systems biology.
Program Objectives:
- Introduce the concept and biological significance of protein-protein interaction networks.
- Equip participants with hands-on experience in constructing PPI networks using cutting-edge tools.
- Teach participants to analyze PPI networks to identify key hub proteins and their biological roles.
- Facilitate the understanding of functional enrichment and its integration with PPI networks.
What you will learn?
Day 1: Basics of PPI and Target Data Retrieval
Introduction to PPI Networks
- Overview of protein-protein interactions and their importance in biological systems
- Insights into the applications of PPI networks in disease research and drug discovery
Target Data Retrieval for PPI Networks
- Accessing databases like STRING
- Techniques for filtering and preprocessing PPI data
Hands-On Session
- Practical demonstration of target data retrieval
- Organizing and preparing data for PPI network construction
Day 2: Network Construction and Centrality Analysis
Building PPI Networks
- Using Cytoscape and STRING for network construction
- Importing and visualizing PPI data
Network Analysis Using CytoNCA
- Introduction to centrality metrics: degree centrality, closeness centrality, betweenness centrality
- Identifying hub proteins and key network nodes
Hands-On Session
- Step-by-step network construction with Cytoscape
- Practical exercises on network analysis and interpretation
Day 3: Functional Enrichment and Advanced Visualization
Gene Ontology (GO) and Pathway Analysis
- Introduction to GO terms and KEGG pathways
- Understanding functional enrichment analysis
Functional Enrichment with ClueGO
- Setting up the ClueGO plugin in Cytoscape
- Configuring and interpreting enrichment results
Advanced Visualization Techniques
- Improving PPI network visualization for publication
- Integrating enriched biological functions into the network
Hands-On Session
- Practical implementation of GO and pathway enrichment analysis
- Finalizing a PPI network for research or presentation purposes
Requirements
- Hardware: Windows PC or laptop with stable internet connection
- Software:
- Cytoscape (latest version)
- Plugins: ClueGO, CytoNCA
- Access to PPI databases (e.g., STRING)
Mentor Profile
Fee Plan
Get an e-Certificate of Participation!
Intended For :
- Undergraduate or graduate degree in Biotechnology, Bioinformatics, Life Sciences, or related fields.
- Professionals from the pharmaceutical, healthcare, and biotechnology industries.
- Researchers with an interest in molecular biology, disease research, and systems biology.
Career Supporting Skills
Program Outcomes
- Proficiency in constructing and analyzing protein-protein interaction networks.
- Identification of key hub proteins and their biological significance.
- Mastery in functional enrichment analysis and pathway integration.
- Advanced visualization skills for publication-ready PPI networks.
- Competence in using Cytoscape and its plugins for research purposes.