Five-Day Hands-On Workshop on Bioinformatics for One Health and Pathogen-Specific Research
Organised by: CSIR-Institute of Genomics and Integrative Biology, New Delhi
Funded by: Indian Council of Medical Research (ICMR)
Dates: November 3rd - 7th, 2025
Workshop Inauguration & Leadership
Welcome Address
Dr. Souvik Maiti
Director, CSIR-IGIB
Workshop Convenor
Monday, Nov 3rd | 9:30 AM - 9:45 AM
Dr. Maiti will inaugurate this transformative workshop, setting the stage for five days of intensive learning in bioinformatics and pathogen surveillance.
Special Address
Dr. Nivedita Gupta
Head, Communicable Diseases, ICMR
Guest of Honour
Monday, Nov 3rd | 9:45 AM - 10:00 AM
Dr. Gupta will share ICMR's vision for advancing pathogen research and the critical role of bioinformatics in public health.
Organizing Head
Dr. Jitendra Narayan
Principal Scientist, CSIR-IGIB
Dr. Narayan is a leading expert in bioinformatics and big data analytics, specializing in genomic epidemiology and pathogen surveillance systems. As the Organizing Head, he has curated this comprehensive scientific program to bridge the gap between computational methods and practical applications in One Health research.
His research focuses on developing innovative bioinformatics pipelines for next-generation sequencing data analysis, antimicrobial resistance profiling, and integrative multi-omics approaches for infectious disease research.
Team Members
Dr. Bhupesh Taneja
PRINCIPAL SCIENTIST,
CSIR-IGIB
Structural biology; X‑ray crystallography; Mycobacterial proteins; Genome informatics
Dr. Rajesh Pandey
PRINCIPAL SCIENTIST,
CSIR-IGIB
Integrative genomics of host‑pathogen interactions with single‑cell multi‑omics; co‑infections
Dr. Rakesh Sharma
PRINCIPAL SCIENTIST,
CSIR-IGIB
Metagenomics; Microbial diversity; Environmental and gut microbiomes; AMR in waterbodies; Metal–microbe interactions
Workshop Concept: Navigating Global Health Challenges
The global health landscape is increasingly challenged by the rapid emergence of infectious diseases (EIDs) and the escalating threat of antimicrobial resistance (AMR). These crises demand a holistic and interconnected approach to public health.
One Health Philosophy
This workshop champions the "One Health" philosophy, recognizing the inextricable link between the health of humans, animals, and our shared environment. Effective solutions demand collaborative strategies across these domains.
Genomics & Bioinformatics Revolution
Revolutionary advances in genomics and bioinformatics provide unprecedented capabilities for disease surveillance, early detection, rapid characterization of pathogens, and understanding resistance mechanisms. These powerful tools empower precise, targeted interventions.
Critical Need for Skilled Workforce
The transformative potential of these technologies requires a highly skilled workforce. This workshop aims to bridge the knowledge gap, equipping professionals to effectively utilize genomic data for informed public health decision-making, particularly in regions disproportionately affected by EIDs and AMR.
Workshop Objectives
To provide participants with foundational knowledge in bioinformatics applied to emerging infectious diseases and antimicrobial resistance.
To introduce key genomic sequencing technologies and their applications in public health.
To train participants in the practical use of bioinformatics tools for genomic data analysis.
To enable participants to interpret genomic data for informed public health decision-making.
To foster a collaborative network among researchers working on One Health initiatives and bioinformatics.
To enhance local capacity for genomic surveillance and outbreak response using advanced bioinformatics techniques.
Featured Speakers: Genomics & AI Experts
Dr. Jitendra Narayan
Talk 1: One Health Framework & Sequencing Technologies
Monday, Nov 3rd | 10:15 AM
Talk 2: Genome Assembly
Tuesday, Nov 4th | 9:30 AM
Dr. Souvik Mukherjee
Precision Microbiomics: Unraveling the Antimicrobial Resistome
Tuesday, Nov 4th | 12:00 PM - 1:00 PM
Exploring cutting-edge approaches to understanding microbial resistance patterns
Dr. Rakesh Sharma
Microbial Diversity, Pathogens and AMR of Waterbodies
Tuesday, Nov 4th | 3:30 PM - 4:30 PM
Investigating environmental surveillance and aquatic pathogen genomics
Featured Speakers: AI & Multi-Omics
Dr. Shandar Ahmed
NGS Data Analysis using AI Methods
Wednesday, Nov 5th | 9:30 AM - 11:00 AM
Learn how machine learning and deep learning revolutionize genomic data interpretation and pattern recognition in pathogen surveillance.
Dr. Rajesh Pandey
Economics of Genomics: Active and Inactive Microbes
Wednesday, Nov 5th | 11:30 AM - 1:00 PM
Understanding metabolic activity states in microbial communities and their implications for disease pathogenesis.
Dr. Manish Kumar
Discovery of Drug Resistance Factors in Multi-Omics Data
Wednesday, Nov 5th | 2:00 PM - 3:30 PM
Integrative approaches to identify resistance mechanisms across genomic, transcriptomic, and proteomic datasets.
Featured Speakers: Advanced Surveillance & Data Integration
Dr. Kumardeep Chaudhary
Federated AI for Longitudinal Surveillance of AMR
Thursday, Nov 6th | 9:30 AM - 10:30 AM
Discover how federated learning enables privacy-preserving collaborative analysis across multiple institutions, creating powerful AMR surveillance networks without compromising data security.
Dr. Sanjay Deshpande
Integrating Data and Discovery: IBDC for Pathogen Research
Friday, Nov 7th | 9:30 AM - 11:30 AM
Explore the Indian Biological Data Centre's comprehensive infrastructure for storing, accessing, and analyzing pathogen genomic data to accelerate research and public health responses.
Day 1 Schedule: Foundations of One Health
Monday, November 3rd, 2025
1
9:30 AM - 10:00 AM
Inauguration Ceremony
Welcome addresses by Dr. Souvik Maiti and Dr. Nivedita Gupta
2
10:15 AM - 11:15 AM
Talk 1: One Health Framework & Sequencing Technologies
Dr. Jitendra Narayan
3
2:00 PM - 3:30 PM
Hands-On Session: Linux Basics for Bioinformatics
Essential command-line skills for genomic data analysis
4
3:30 PM - 5:00 PM
Hands-On: NGS Data Quality Assessment
Practical training with FastQC and Trimmomatic tools
5
5:00 PM
Facility Tour: CSIR-IGIB Bio-bank & HPC Center
Explore state-of-the-art infrastructure
Day 2 & Day 3 Schedules
Tuesday, November 4th
Metagenomics Surveillance
  • 9:30 AM: Talk 2 - Genome Assembly (Dr. Jitendra Narayan)
  • 12:00 PM: Talk 3 - Precision Microbiomics (Dr. Souvik Mukherjee)
  • 3:30 PM: Talk 4 - Microbial Diversity in Waterbodies (Dr. Rakesh Sharma)
  • 4:30 PM: Hands-On - Metagenomic Community Profiling
Wednesday, November 5th
Hologenome & AI in Genomics
  • 9:30 AM: Talk 5 - NGS Data Analysis using AI (Dr. Shandar Ahmed)
  • 11:30 AM: Talk 6 - Economics of Genomics (Dr. Rajesh Pandey)
  • 2:00 PM: Talk 7 - Drug Resistance Discovery (Dr. Manish Kumar)
  • 4:45 PM: Hands-On - Microbiome Analysis with AI
Day 4 & Day 5 Schedules
Thursday, November 6th
Comparative Genomics
  • 9:30 AM: Talk 8 - Federated AI for AMR Surveillance (Dr. Kumardeep Chaudhary)
  • 2:00 PM: Hands-On - Pathogen Genome Analysis
  • 3:45 PM: Hands-On - Host Response Analysis
  • 8:00 PM: Gala Dinner - Networking and celebration
Friday, November 7th
Harnessing Biological Data
  • 9:30 AM - 11:30 AM: Talk 9 - Integrating Data and Discovery (Dr. Sanjay Deshpande presents on IBDC for Pathogen Research)
  • 11:45 AM: Valedictory Session & Certificate Distribution: Closing remarks and celebration of achievements
Building the Future of Pathogen Surveillance
This workshop represents a crucial step forward in integrating bioinformatics expertise with One Health approaches to combat emerging infectious diseases and antimicrobial resistance.
We extend our deepest gratitude to all esteemed speakers, dedicated participants, and the exceptional organizing team who made this transformative workshop possible. Your commitment to advancing pathogen surveillance and bioinformatics excellence will have lasting impacts on public health research.
Acknowledgements
This workshop is made possible through the generous support of the Council of Scientific & Industrial Research (CSIR) and the Indian Council of Medical Research (ICMR). Their vision and funding enable cutting-edge training in genomics and computational biology.
CSIR-Institute of Genomics and Integrative Biology, New Delhi
November 3rd - 7th, 2025