解析表观遗传学的工具

您所在的位置:网站首页 转座酶建库可以应用于哪些场景 解析表观遗传学的工具

解析表观遗传学的工具

2024-07-10 07:51| 来源: 网络整理| 查看: 265

  小远叨叨

关于ATAC-seq的介绍我们就先将讲这么多,相信大家看完这篇文章对ATAC-seq都会有一个清晰地认识,后面伯小远会结合具体的文献给大家讲一讲ATAC-seq的应用,感兴趣的同学可以继续关注哦!

References:

陈敏, 张峥, 孟紫媛,等. ATAC-seq在复杂疾病研究中的应用进展[J]. 遗传, 2020, 42(4):7.

Ackermann A M, Wang Z, Schug J, et al. Integration of ATAC-seq and RNA-seq identifies human alpha cell and beta cell signature genes[J]. Molecular metabolism, 2016, 5(3): 233-244.

Bártová E, Kozubek S. Nuclear architecture in the light of gene expression and cell differentiation studies[J]. Biology of the Cell, 2006, 98(6): 323-336.

Baylin S B, Schuebel K E. The epigenomic era opens[J]. Nature, 2007, 448(7153): 548-549.

Bell O, Tiwari V K, Thomä N H, et al. Determinants and dynamics of genome accessibility[J]. Nature Reviews Genetics, 2011, 12(8): 554-564.

Buenrostro J D, Giresi P G, Zaba L C, et al. Transposition of native chromatin for fast and sensitive epigenomic profiling of open chromatin, DNA-binding proteins and nucleosome position[J]. Nature methods, 2013, 10(12): 1213-1218.

Chen T, Dent S Y R. Chromatin modifiers and remodellers: regulators of cellular differentiation[J]. Nature Reviews Genetics, 2014, 15(2): 93-106.

Chuong E B, Elde N C, Feschotte C. Regulatory activities of transposable elements: from conflicts to benefits[J]. Nature Reviews Genetics, 2017, 18(2): 71-86.

Davie K, Jacobs J, Atkins M, et al. Discovery of transcription factors and regulatory regions driving in vivo tumor development by ATAC-seq and FAIRE-seq open chromatin profiling[J]. PLoS genetics, 2015, 11(2): e1004994.

Gottesfeld J M, Carey M F. Introduction to the thematic Minireview series: chromatin and transcription[J]. Journal of Biological Chemistry, 2018, 293(36): 13775-13777.

Haniford D B, Ellis M J. Transposons Tn10 and Tn5[J]. Mobile DNA III, 2015: 631-645.

Hsiung C C S, Morrissey C S, Udugama M, et al. Genome accessibility is widely preserved and locally modulated during mitosis[J]. Genome research, 2015, 25(2): 213-225.

Jackson D A. Nuclear organization: uniting replication foci, chromatin domains and chromosome structure[J]. Bioessays, 1995, 17(7): 587-591.

Kumasaka N, Knights A J, Gaffney D J. Fine-mapping cellular QTLs with RASQUAL and ATAC-seq[J]. Nature genetics, 2016, 48(2): 206-213.

Mardis E R. Next-generation DNA sequencing methods[J]. Annual review of genomics and human genetics, 2008, 9(1): 387-402.

Miskimen K L S, Chan E R, Haines J L. Assay for Transposase‐Accessible Chromatin Using Sequencing (ATAC‐seq) Data Analysis[J]. Current Protocols in Human Genetics, 2017, 92(1): 20.4. 1-20.4. 13.

Morris S A, Baek S, Sung M H, et al. Overlapping chromatin-remodeling systems collaborate genome wide at dynamic chromatin transitions[J]. Nature structural & molecular biology, 2014, 21(1): 73-81.

Mu J C, Jiang H, Kiani A, et al. Fast and accurate read alignment for resequencing[J]. Bioinformatics, 2012, 28(18): 2366-2373.

Pederson T. The spatial organization of the genome in mammalian cells[J]. Current opinion in genetics & development, 2004, 14(2): 203-209.

Picelli S, Björklund Å K, Reinius B, et al. Tn5 transposase and tagmentation procedures for massively scaled sequencing projects[J]. Genome research, 2014, 24(12): 2033-2040.

Pranzatelli T J F, Michael D G, Chiorini J A. ATAC2GRN: optimized ATAC-seq and DNase1-seq pipelines for rapid and accurate genome regulatory network inference[J]. BMC genomics, 2018, 19(1): 1-13.

Quillien A, Abdalla M, Yu J, et al. Robust identification of developmentally active endothelial enhancers in zebrafish using FANS-assisted ATAC-Seq[J]. Cell reports, 2017, 20(3): 709-720.

Reznikoff W S. The TN5 transposon[J]. Annual review of microbiology, 1993, 47(1): 945-963.

Rinn J L, Chang H Y. Genome regulation by long noncoding RNAs[J]. Annual review of biochemistry, 2012, 81.

Stergachis A B, Neph S, Reynolds A, et al. Developmental fate and cellular maturity encoded in human regulatory DNA landscapes[J]. Cell, 2013, 154(4): 888-903.

Sun Y, Miao N, Sun T. Detect accessible chromatin using ATAC-sequencing, from principle to applications[J]. Hereditas, 2019, 156(1): 1-9.

Thurman R E, Rynes E, Humbert R, et al. The accessible chromatin landscape of the human genome[J]. Nature, 2012, 489(7414): 75-82.

Tsompana M, Buck M J. Chromatin accessibility: a window into the genome[J]. Epigenetics & chromatin, 2014, 7(1): 1-16.

《解析表观遗传学的工具——ATAC-seq(一)》



【本文地址】


今日新闻


推荐新闻


CopyRight 2018-2019 办公设备维修网 版权所有 豫ICP备15022753号-3