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What You’ll Learn
✓Understand the principles and applications of ATAC-Seq
✓Understand chromatin accessibility and regulatory genomics
✓Perform quality assessment of ATAC-Seq sequencing data
✓Perform read preprocessing and genome alignment
✓Process and evaluate ATAC-Seq BAM files
✓Perform peak calling to identify accessible chromatin regions
✓Analyze genomic distribution of ATAC-Seq peaks
✓Perform transcription factor motif analysis
✓Visualize accessibility signals using genome browsers
✓Interpret ATAC-Seq results in a biological context
Tools & Technologies
FastQCBowtie2SamtoolsMACS3deepToolsIGVHOMER
Course Curriculum
Introduction to ATAC-Seq & Chromatin Accessibility · 60 mins — practical lessons, demonstrations and guided work included in this module.
ATAC-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 & ATAC-Seq Alignment QC · 60 mins — practical lessons, demonstrations and guided work included in this module.
TSS Enrichment, Fragment Size & Library Quality Assessment · 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 & Accessible Region Analysis · 60 mins — practical lessons, demonstrations and guided work included in this module.
Genomic Annotation of ATAC-Seq Peaks · 60 mins — practical lessons, demonstrations and guided work included in this module.
Motif Discovery & Transcription Factor 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 Chromatin Accessibility Analysis · 60 mins — practical lessons, demonstrations and guided work included in this module.
Functional Interpretation of Accessible Regions · 60 mins — practical lessons, demonstrations and guided work included in this module.
Mini Project: Complete ATAC-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 ATAC-Seq?⌄
ATAC-Seq is a sequencing-based method used to identify regions of open or accessible chromatin across the genome.
Who can join this ATAC-Seq training?⌄
The course is suitable for biotechnology, bioinformatics, life science, genetics, genomics and related students, researchers and professionals.
Do I need prior ATAC-Seq experience?⌄
No. The course begins with fundamental concepts and progressively moves toward practical data analysis.
Will this course include hands-on analysis?⌄
Yes. The training focuses on practical ATAC-Seq 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. You will learn to identify accessible chromatin regions using peak-calling workflows.
Will I learn motif analysis?⌄
Yes. The curriculum includes motif discovery and transcription factor analysis.
Will I learn differential accessibility analysis?⌄
Yes. The course introduces comparison of chromatin accessibility between experimental conditions.
Will I receive a certificate?⌄
Yes, participants can receive a certificate upon successful completion of the training.
Is there a project at the end of the course?⌄
Yes. Day 15 includes a mini project covering the complete ATAC-Seq data analysis workflow.
