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How To Analyze ChIP-seq Data For Absolute Beginners Part 3: Differential Binding Analysis and Motif Discovery
Introduction: Moving Beyond Basic Peak Calling In our previous tutorials, we walked through the fundamental process of ChIP-seq analysis, from raw sequencing reads to identifying where a protein of interest binds to DNA. While finding these binding sites (peaks) is a crucial first step, it’s often just the beginning of extracting meaningful biological insights from…
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Recent Posts
- How To Analyze ATAC-seq Data For Absolute Beginners Part 1: From FASTQ To Peaks
- How To Analyze ChIP-seq Data For Absolute Beginners Part 5: Mastering Reproducibility With IDR Analysis
- How To Analyze ChIP-seq Data For Absolute Beginners Part 4: From FASTQ To Peaks With MACS2
- How To Analyze ChIP-seq Data For Absolute Beginners Part 3: Differential Binding Analysis and Motif Discovery
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Alternative Splicing Analysis batch effects ChIP-seq ComBat-seq Counts covariates adjustment CPM Data Sharing DESeq2 Differential Expression edgeR FPKM gene expression HOMER HPC Isoform limma MACS2 miRNA miRNA-seq mixed linear models Normalization peak calling Quantification Salmon TPM Transcript Virus Virus-Host Virus Gene Expression