ATAC-seq: from fastq to peaks

[DawnEve]

1. 可能是 ATAC-seq 方法的原始文献 (nature methods, 2023)

https://www.nature.com/articles/nmeth.2688 Transposition of native chromatin for fast and sensitive epigenomic profiling of open chromatin, DNA-binding proteins and nucleosome position 表观测序领域大牛William J Greenleaf和Howard Y Chang的经典之作，引用上千次的ATAC经典原文

2. ENCODE的ATAC-seq数据标准

• 来源：https://www.encodeproject.org/atac-seq ATAC-seq Data Standards and Processing Pipeline

3. 一个english博客，含代码

https://yiweiniu.github.io/blog/2019/03/ATAC-seq-data-analysis-from-FASTQ-to-peaks/

4. ATAC-seq 综述 （Genome Biol. 2020）

https://pubmed.ncbi.nlm.nih.gov/32014034/ From reads to insight: a hitchhiker's guide to ATAC-seq data analysis

---

其他的工具 macs，bowtie，igv 有对应的官网，也有网友写的中文博客

[DawnEve]

公司的教程

• abcam: Chromatin accessibility and architecture https://www.abcam.com/epigenetics/chromatin-accessibility-and-architecture