MethBank: a database integrating next-generation sequencing single-base-resolution DNA methylation programming data.
MethBank: a database integrating next-generation sequencing single-base-resolution DNA methylation programming data.
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DOI：
10.1093/nar/gku920
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发表时间：
2015-01
影响因子：
14.9
通讯作者：
Zhang Z
中科院分区：
文献类型：
--
作者：
Zou D;Sun S;Li R;Liu J;Zhang J;Zhang Z
DNA甲基化在胚胎发育过程中起着至关重要的作用。在这里，我们介绍了MethBank（dnamethylome.org），一个DNA甲基化组编程数据库，它整合了不同模式生物配子和早期胚胎的全基因组单碱基核苷酸甲基化组。与现存的相关数据库不同，MethBank整合了斑马鱼和小鼠多个不同发育阶段配子和早期胚胎的全基因组单碱基分辨率甲基化组。MethBank允许用户检索特定基因或基因组区域的甲基化水平、差异甲基化区域、CpG岛、基因表达谱和遗传多态性。此外，它还提供了一个甲基化浏览器，能够以交互方式可视化高分辨率的DNA甲基化图谱以及其他相关数据，因此对于用户研究配子和早期胚胎在不同发育阶段的甲基化模式和变化非常有用。正在进行的努力集中在纳入甲基化和其他生物体的相关数据。同时，MethBank具有高分辨率DNA甲基化数据以及其他相关数据的整合和可视化功能，能够识别不同发育阶段的潜在DNA甲基化特征，从而为表观遗传和发育研究提供重要资源。
DNA methylation plays crucial roles during embryonic development. Here we present MethBank (http://dnamethylome.org), a DNA methylome programming database that integrates the genome-wide single-base nucleotide methylomes of gametes and early embryos in different model organisms. Unlike extant relevant databases, MethBank incorporates the whole-genome single-base-resolution methylomes of gametes and early embryos at multiple different developmental stages in zebrafish and mouse. MethBank allows users to retrieve methylation levels, differentially methylated regions, CpG islands, gene expression profiles and genetic polymorphisms for a specific gene or genomic region. Moreover, it offers a methylome browser that is capable of visualizing high-resolution DNA methylation profiles as well as other related data in an interactive manner and thus is of great helpfulness for users to investigate methylation patterns and changes of gametes and early embryos at different developmental stages. Ongoing efforts are focused on incorporation of methylomes and related data from other organisms. Together, MethBank features integration and visualization of high-resolution DNA methylation data as well as other related data, enabling identification of potential DNA methylation signatures in different developmental stages and accordingly providing an important resource for the epigenetic and developmental studies.
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影响因子：
46.9
作者：
Ball, Madeleine P.;Li, Jin Billy;Gao, Yuan;Lee, Je-Hyuk;LeProust, Emily M.;Park, In-Hyun;Xie, Bin;Daley, George Q.;Church, George M.
通讯作者：
Church, George M.
影响因子：
14.9
作者：
Ongenaert M;Van Neste L;De Meyer T;Menschaert G;Bekaert S;Van Criekinge W
通讯作者：
Van Criekinge W
影响因子：
64.5
作者：
Okano, M;Bell, DW;Li, E
通讯作者：
Li, E
影响因子：
7
作者：
Skinner, Mitchell E.;Uzilov, Andrew V.;Holmes, Ian H.
通讯作者：
Holmes, Ian H.
影响因子：
14.9
作者：
Xin Y;Chanrion B;O'Donnell AH;Milekic M;Costa R;Ge Y;Haghighi FG
通讯作者：
Haghighi FG