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What You’ll Learn
✓Understand the principles and applications of ChIP-Seq
✓Understand transcription factor binding and histone modification profiling
✓Perform quality control of ChIP-Seq FASTQ data
✓Perform read preprocessing and genome alignment
✓Generate and evaluate alignment files
✓Perform peak calling from ChIP-Seq data
✓Compare ChIP and control/Input samples
✓Visualize peaks in a genome browser
✓Annotate genomic peaks to nearby genes
✓Interpret ChIP-Seq results for regulatory genomics
Tools & Technologies
FastQCBowtie2SamtoolsMACS3deepToolsIGVHOMER
Course Curriculum
Introduction to ChIP-Seq & Experimental Design · 60 mins — practical lessons, demonstrations and guided work included in this module.
ChIP-Seq Data Structure & FASTQ Quality Assessment · 60 mins — practical lessons, demonstrations and guided work included in this module.
Quality Control & Read Preprocessing · 60 mins — practical lessons, demonstrations and guided work included in this module.
Reference Genome Preparation & Read Alignment · 60 mins — practical lessons, demonstrations and guided work included in this module.
SAM/BAM Processing & Alignment Quality Assessment · 60 mins — practical lessons, demonstrations and guided work included in this module.
ChIP/Input Comparison & Library Quality Metrics · 60 mins — practical lessons, demonstrations and guided work included in this module.
Peak Calling Using MACS3 · 60 mins — practical lessons, demonstrations and guided work included in this module.
Peak Quality Control & Peak Filtering · 60 mins — practical lessons, demonstrations and guided work included in this module.
Peak Annotation & Genomic Feature Analysis · 60 mins — practical lessons, demonstrations and guided work included in this module.
Motif Discovery & Transcription Factor Binding Analysis · 60 mins — practical lessons, demonstrations and guided work included in this module.
Signal Visualization Using deepTools · 60 mins — practical lessons, demonstrations and guided work included in this module.
Genome Browser Visualization Using IGV · 60 mins — practical lessons, demonstrations and guided work included in this module.
Differential Binding & Comparative ChIP-Seq Analysis · 60 mins — practical lessons, demonstrations and guided work included in this module.
Functional Interpretation of ChIP-Seq Peaks · 60 mins — practical lessons, demonstrations and guided work included in this module.
Mini Project: Complete ChIP-Seq Data Analysis Workflow · 60 mins — practical lessons, demonstrations and guided work included in this module.
Your Instructor
Bio Help Learning Educator
Educator | MentorLearn from experienced educators and practitioners through practical, career-focused bioinformatics training.
Student Reviews
AV
“Excellent course! The content is practical and the projects made the concepts much easier to apply.”
Ananya VermaPhD Scholar, India★★★★★RM
“Hands-on projects made all the difference. Highly recommended for anyone interested in NGS.”
Rahul MehtaResearch Associate, Germany★★★★★SM
“Very detailed and industry-relevant content. I feel much more confident now.”
Sneha PatelBioinformatics Analyst, India★★★★★Frequently Asked Questions
Need help? →What is ChIP-Seq?⌄
ChIP-Seq is a sequencing-based technique used to investigate protein-DNA interactions and genomic regions associated with transcription factors or histone modifications.
Who can join this ChIP-Seq training?⌄
The course is suitable for biotechnology, bioinformatics, life science, genetics, genomics and related students, researchers and professionals.
Do I need prior ChIP-Seq experience?⌄
No. The course begins with fundamental concepts and progresses toward practical data analysis.
Will this course include hands-on analysis?⌄
Yes. The training focuses on practical ChIP-Seq data analysis using sequencing datasets.
Which tools will I learn?⌄
You will work with FastQC, Bowtie2, Samtools, MACS3, deepTools, IGV and HOMER.
Will I learn peak calling?⌄
Yes. Peak identification and quality assessment using MACS3 are included in the curriculum.
Will I learn motif analysis?⌄
Yes. The course introduces motif discovery and transcription-factor binding analysis.
Will I learn genome-browser visualization?⌄
Yes. You will learn to inspect ChIP-Seq peaks and genomic regions using IGV.
Will I receive a certificate?⌄
Yes, participants can receive a certificate upon successful completion of the training.
