The ENCODE Portal as an Epigenomics Resource.
The ENCODE Portal as an Epigenomics Resource.
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DOI：
10.1002/cpbi.89
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发表时间：
2019-12-01
影响因子：
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通讯作者：
Cherry, J Michael
中科院分区：
文献类型：
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作者：
Jou, Jennifer;Gabdank, Idan;Cherry, J Michael
DNA元素的百科全书（编码）Web Portal主机由编码财团生成的基因组数据，基因调节的基因组学，NIH路线图表观基因组学财团以及Modencode和Modencode和Modern Projects的目标。人类和小鼠基因组的功能元素。跨越基因表达，DNA可及性，DNA和RNA结合，DNA甲基化和3D染色质结构的实验，跨许多细胞系，组织类型和分化状态，具有所选的遗传和分子扰动。数据和相关的元数据作为科学界的服务。处理的数据文件，以及人类和机器可读表单中的处理管道，使用户可以通过REST API使用Web浏览器搜索特定的数据作者。基本协议：查询门户支持协议1：批次下载支持协议2：使用购物车下载文件3：可视化数据替代协议：查询构建和程序化访问。
The Encyclopedia of DNA Elements (ENCODE) web portal hosts genomic data generated by the ENCODE Consortium, Genomics of Gene Regulation, The NIH Roadmap Epigenomics Consortium, and the modENCODE and modERN projects. The goal of the ENCODE project is to build a comprehensive map of the functional elements of the human and mouse genomes. Currently, the portal database stores over 500 TB of raw and processed data from over 15,000 experiments spanning assays that measure gene expression, DNA accessibility, DNA and RNA binding, DNA methylation, and 3D chromatin structure across numerous cell lines, tissue types, and differentiation states with selected genetic and molecular perturbations. The ENCODE portal provides unrestricted access to the aforementioned data and relevant metadata as a service to the scientific community. The metadata model captures the details of the experiments, raw and processed data files, and processing pipelines in human and machine-readable form and enables the user to search for specific data either using a web browser or programmatically via REST API. Furthermore, ENCODE data can be freely visualized or downloaded for additional analyses. © 2019 The Authors. Basic Protocol: Query the portal Support Protocol 1: Batch downloading Support Protocol 2: Using the cart to download files Support Protocol 3: Visualize data Alternate Protocol: Query building and programmatic access.