CellMiner: a relational database and query tool for the NCI-60 cancer cell lines.
CellMiner: a relational database and query tool for the NCI-60 cancer cell lines.
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DOI：
10.1186/1471-2164-10-277
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发表时间：
2009-06-23
期刊：
影响因子：
4.4
通讯作者：
Weinstein JN
中科院分区：
文献类型：
--
作者：
Shankavaram UT;Varma S;Kane D;Sunshine M;Chary KK;Reinhold WC;Pommier Y;Weinstein JN
高通量组学技术的进步使得在DNA、RNA、蛋白质、染色体、功能和药理学水平上以大量方式对细胞进行分析成为可能。一个持续存在的问题是，某些类别的分子数据用基因标识符标记，其他类别的分子数据用转录本或蛋白质标识符标记，还有一些类别的分子数据用染色体位置标记。落后的是整合结果数据以揭示复杂关系和模式的能力。自1990年以来，美国国家癌症研究所使用60种不同的人类癌细胞系（NCI-60）的分子谱数据来全面反映这些问题，以筛选化合物的抗癌活性。据我们所知，CellMiner是第一个用于整合不同分子类型的NCI-60和相关Meta数据的在线数据库资源。CellMiner使科学家能够通过单个Web界面对NCI-60（和其他类型）的分子信息进行高级查询。CellMiner是一个免费提供的工具，它组织和存储原始和标准化数据，这些数据代表了DNA，RNA，蛋白质和药理学水平上的多种类型的分子表征。每个项目的注释，沿着与样品和数据集上的相关元数据一起，存储在MySQL数据库中并链接到分子谱数据。数据可以查询和下载沿着关于每个数据集的实验和分析方法的综合信息。数据交叉工具允许选择两个或多个数据集之间共有的基因（蛋白质）列表，并输出相应数据集中这些基因（蛋白质）的数据。除了作为NCI-60的综合资源外，CellMiner软件包还可作为其他细胞或组织样本类型的分子谱数据整合的外壳。CellMiner是一个关系数据库工具，用于存储，查询，整合和下载NCI-60和其他癌细胞类型的分子谱数据。更广泛地说，它提供了一个模板，用于为学术机构、公共项目或私营部门生成的其他分子谱数据提供此类功能。CellMiner可在线获得。
Advances in the high-throughput omic technologies have made it possible to profile cells in a large number of ways at the DNA, RNA, protein, chromosomal, functional, and pharmacological levels. A persistent problem is that some classes of molecular data are labeled with gene identifiers, others with transcript or protein identifiers, and still others with chromosomal locations. What has lagged behind is the ability to integrate the resulting data to uncover complex relationships and patterns. Those issues are reflected in full form by molecular profile data on the panel of 60 diverse human cancer cell lines (the NCI-60) used since 1990 by the U.S. National Cancer Institute to screen compounds for anticancer activity. To our knowledge, CellMiner is the first online database resource for integration of the diverse molecular types of NCI-60 and related meta data. CellMiner enables scientists to perform advanced querying of molecular information on NCI-60 (and additional types) through a single web interface. CellMiner is a freely available tool that organizes and stores raw and normalized data that represent multiple types of molecular characterizations at the DNA, RNA, protein, and pharmacological levels. Annotations for each project, along with associated metadata on the samples and datasets, are stored in a MySQL database and linked to the molecular profile data. Data can be queried and downloaded along with comprehensive information on experimental and analytic methods for each data set. A Data Intersection tool allows selection of a list of genes (proteins) in common between two or more data sets and outputs the data for those genes (proteins) in the respective sets. In addition to its role as an integrative resource for the NCI-60, the CellMiner package also serves as a shell for incorporation of molecular profile data on other cell or tissue sample types. CellMiner is a relational database tool for storing, querying, integrating, and downloading molecular profile data on the NCI-60 and other cancer cell types. More broadly, it provides a template to use in providing such functionality for other molecular profile data generated by academic institutions, public projects, or the private sector. CellMiner is available online at .
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影响因子：
50.3
作者：
Szakács, G;Annereau, JP;Gottesman, MM
通讯作者：
Gottesman, MM
影响因子：
4.8
作者：
Rhodes, DR;Yu, JJ;Chinnaiyan, AM
通讯作者：
Chinnaiyan, AM
影响因子：
3.2
作者：
BOYD, DA;CVITKOVITCH, DG;HAMILTON, IR
通讯作者：
HAMILTON, IR
影响因子：
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作者：
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通讯作者：
Weller, JW
影响因子：
11.2
作者：
Meng, Ling-hua;Shankavaram, Uma;Pommier, Yves
通讯作者：
Pommier, Yves