Targeted exploration and analysis of large cross-platform human transcriptomic compendia.
Targeted exploration and analysis of large cross-platform human transcriptomic compendia.
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DOI：
10.1038/nmeth.3249
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发表时间：
2015-03
期刊：
影响因子：
48
通讯作者：
Troyanskaya OG
中科院分区：
文献类型：
--
作者：
Zhu Q;Wong AK;Krishnan A;Aure MR;Tadych A;Zhang R;Corney DC;Greene CS;Bongo LA;Kristensen VN;Charikar M;Li K;Troyanskaya OG
我们提出SEEK (http://seek.princeton.edu)，这是一个基于查询的搜索引擎，涵盖了非常大的转录组数据集，包括来自近50个微阵列和下一代测序平台的数千个人类数据集。SEEK使用一种新颖的基于查询级交叉验证的算法来自动确定与查询相关的数据集的优先级，并使用一种健壮的搜索方法来识别查询协同调节的基因、途径和过程。SEEK提供跨平台处理、多基因查询搜索、基于元数据的迭代搜索细化和广泛的基于可视化的分析选项。
We present SEEK (http://seek.princeton.edu), a query-based search engine across very large transcriptomic data collections, including thousands of human data sets from almost 50 microarray and next-generation sequencing platforms. SEEK uses a novel query-level cross-validation-based algorithm to automatically prioritize data sets relevant to the query and a robust search approach to identify query-coregulated genes, pathways, and processes. SEEK provides cross-platform handling, multi-gene query search, iterative metadata-based search refinement, and extensive visualization-based analysis options.