Transposition of native chromatin for fast and sensitive epigenomic profiling of open chromatin, DNA-binding proteins and nucleosome position.
Transposition of native chromatin for fast and sensitive epigenomic profiling of open chromatin, DNA-binding proteins and nucleosome position.
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DOI：
10.1038/nmeth.2688
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发表时间：
2013-12
期刊：
影响因子：
48
通讯作者：
Greenleaf, William J.
中科院分区：
文献类型：
--
作者：
Buenrostro, Jason D.;Giresi, Paul G.;Zaba, Lisa C.;Chang, Howard Y.;Greenleaf, William J.
目前表观基因组技术的几个局限性妨碍了它们在许多实验和临床环境中的使用。在这里，我们描述了使用测序（ATAC-seq）的转座酶可降解染色质测定-基于将测序衔接子直接体外转座到天然染色质中-作为用于整合表观基因组分析的快速和灵敏的方法。ATAC-seq使用简单的两步方案从500到50，000个细胞中捕获开放的染色质位点，并揭示开放染色质的基因组位置，DNA结合蛋白，单个核小体和调控区域的高阶压缩之间的相互作用。我们发现DNA结合因子的类别，严格避免，可以容忍，或倾向于与核小体重叠。使用ATAC-seq，我们通过标准抽血测量和解释了先证者静息人类T细胞的连续每日表观基因组，证明了在临床时间尺度上阅读个人表观基因组以监测健康和疾病的可行性。
Several limitations of current epigenomic technology preclude their use in many experimental and clinical settings. Here we describe Assay for Transposase Accessible Chromatin using sequencing (ATAC-seq)— based on direct in vitro transposition of sequencing adapters into native chromatin – as a rapid and sensitive method for integrative epigenomic analysis. ATAC-seq captures open chromatin sites using a simple 2-step protocol from 500 to 50,000 cells, and reveals the interplay between genomic locations of open chromatin, DNA binding proteins, individual nucleosomes, and higher-order compaction at regulatory regions with nucleotide resolution. We discover classes of DNA binding factor that strictly avoid, can tolerate, or tend to overlap with nucleosomes. Using ATAC-seq, we measured and interpreted the serial daily epigenomes of resting human T cells from a proband via standard blood draws, demonstrating the feasibility of reading personal epigenomes in clinical timescales for monitoring health and disease.
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影响因子：
9.8
作者：
ENCODE Project Consortium
通讯作者：
ENCODE Project Consortium
影响因子：
56.9
作者：
FRASER, JD;IRVING, BA;WEISS, A
通讯作者：
WEISS, A
影响因子：
4.3
作者：
Guo Y;Mahony S;Gifford DK
通讯作者：
Gifford DK
DOI：
10.1126/science.1222794
发表时间：
2012-09-07
期刊：
Science (New York, N.Y.)
影响因子：
--
作者：
Maurano MT;Humbert R;Rynes E;Thurman RE;Haugen E;Wang H;Reynolds AP;Sandstrom R;Qu H;Brody J;Shafer A;Neri F;Lee K;Kutyavin T;Stehling-Sun S;Johnson AK;Canfield TK;Giste E;Diegel M;Bates D;Hansen RS;Neph S;Sabo PJ;Heimfeld S;Raubitschek A;Ziegler S;Cotsapas C;Sotoodehnia N;Glass I;Sunyaev SR;Kaul R;Stamatoyannopoulos JA
通讯作者：
Stamatoyannopoulos JA
影响因子：
7
作者：
Pique-Regi, Roger;Degner, Jacob F.;Pritchard, Jonathan K.
通讯作者：
Pritchard, Jonathan K.