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本文引用的文献

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Landscape of monoallelic DNA accessibility in mouse embryonic stem cells and neural progenitor cells.小鼠胚胎干细胞和神经祖细胞中单等位基因DNA可及性图谱
Nat Genet. 2017 Mar;49(3):377-386. doi: 10.1038/ng.3769. Epub 2017 Jan 23.
2
Layer-specific chromatin accessibility landscapes reveal regulatory networks in adult mouse visual cortex.特定层染色质可及性图谱揭示成年小鼠视觉皮层中的调控网络。
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Lineage-specific and single-cell chromatin accessibility charts human hematopoiesis and leukemia evolution.谱系特异性和单细胞染色质可及性图谱描绘了人类造血作用和白血病的演变。
Nat Genet. 2016 Oct;48(10):1193-203. doi: 10.1038/ng.3646. Epub 2016 Aug 15.
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The genetic regulatory signature of type 2 diabetes in human skeletal muscle.2 型糖尿病在人类骨骼肌中的遗传调控特征。
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The landscape of accessible chromatin in mammalian preimplantation embryos.哺乳动物着床前胚胎中可及染色质的全景。
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Distinct Gene Regulatory Pathways for Human Innate versus Adaptive Lymphoid Cells.人类固有淋巴细胞与适应性淋巴细胞不同的基因调控途径。
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A novel ATAC-seq approach reveals lineage-specific reinforcement of the open chromatin landscape via cooperation between BAF and p63.一种新颖的ATAC-seq方法揭示了通过BAF和p63之间的合作实现的谱系特异性开放染色质景观强化。
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Genome-wide detection of DNase I hypersensitive sites in single cells and FFPE tissue samples.在单细胞和 FFPE 组织样本中进行全基因组 DNase I 超敏位点检测。
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一种改进的ATAC-seq方案可减少背景干扰，并能够对冷冻组织进行检测。

An improved ATAC-seq protocol reduces background and enables interrogation of frozen tissues.

作者信息

Corces M Ryan, Trevino Alexandro E, Hamilton Emily G, Greenside Peyton G, Sinnott-Armstrong Nicholas A, Vesuna Sam, Satpathy Ansuman T, Rubin Adam J, Montine Kathleen S, Wu Beijing, Kathiria Arwa, Cho Seung Woo, Mumbach Maxwell R, Carter Ava C, Kasowski Maya, Orloff Lisa A, Risca Viviana I, Kundaje Anshul, Khavari Paul A, Montine Thomas J, Greenleaf William J, Chang Howard Y

机构信息

Center for Personal Dynamic Regulomes, Stanford University School of Medicine, Stanford, California, USA.

Department of Dermatology, Stanford University School of Medicine, Stanford, California, USA.

出版信息

Nat Methods. 2017 Oct;14(10):959-962. doi: 10.1038/nmeth.4396. Epub 2017 Aug 28.

DOI:10.1038/nmeth.4396
PMID:28846090
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC5623106/
Abstract

We present Omni-ATAC, an improved ATAC-seq protocol for chromatin accessibility profiling that works across multiple applications with substantial improvement of signal-to-background ratio and information content. The Omni-ATAC protocol generates chromatin accessibility profiles from archival frozen tissue samples and 50-μm sections, revealing the activities of disease-associated DNA elements in distinct human brain structures. The Omni-ATAC protocol enables the interrogation of personal regulomes in tissue context and translational studies.

摘要

我们展示了Omni-ATAC，这是一种经过改进的用于染色质可及性分析的ATAC-seq方案，它适用于多种应用，显著提高了信噪比和信息含量。Omni-ATAC方案可从存档的冷冻组织样本和50微米切片生成染色质可及性图谱，揭示不同人类脑结构中与疾病相关的DNA元件的活性。Omni-ATAC方案能够在组织背景和转化研究中对个体调控组进行研究。