Tag: RRBS
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How To Analyze DNA Methylation Data For Absolute Beginners Part 3: From WGBS and RRBS Methylation Calls to Biological Insights
Introduction: From Methylation Calls to Biological Understanding In Part 2 of this series, we successfully preprocessed DNA methylation data from raw FASTQ files through to methylation calls using WGBS and RRBS approaches. Now comes the exciting part: transforming those methylation measurements into meaningful biological insights. This tutorial will guide you through the statistical analysis, visualization,
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How To Analyze DNA Methylation Data For Absolute Beginners Part 2: From Raw Data to Methylation Calls with WGBS and RRBS
Introduction: Understanding DNA Methylation Sequencing Technologies DNA methylation represents one of the most important epigenetic modifications in mammalian genomes, playing crucial roles in gene regulation, development, and disease. This chemical modification occurs when a methyl group is added to cytosine bases, primarily in CpG dinucleotide contexts. Understanding where and how methylation patterns change across different
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Alternative Splicing Analysis ATAC-seq BAM ChIP-seq chromatin accessibility CNV DESeq2 Differential Expression edgeR FASTQ GATK Mutect2 gene expression heatmap HOMER HPC Isoform limma MACS2 MAF miRNA miRNA-seq MSigDB Normalization peak calling RNA-seq SLURM somatic mutations Transcript VCF whole genome sequencing