dbDEPC: a database of differentially expressed proteins in human cancers.
dbDEPC: a database of differentially expressed proteins in human cancers.
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dbDEPC：人类癌症差异表达蛋白数据库
DOI：
10.1093/nar/gkp933
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发表时间：
2010-01
影响因子：
14.9
通讯作者：
Li Y
中科院分区：
文献类型：
--
作者：
Li H;He Y;Ding G;Wang C;Xie L;Li Y
长期以来，与癌症相关的研究一直是生物医学研究的焦点。全世界科学家和医生多年来的努力已经在基因组、转录组、蛋白质组甚至代谢组水平产生了大量数据，DNA和RNA癌症标志性数据库已经建立。在这里，我们提出了一个人类癌症差异表达蛋白质数据库(DBDEPC)，目的是收集精选的癌症蛋白质组学数据，为蛋白质水平表达变化的信息提供资源，并探索不同癌症之间的蛋白质谱差异。DBDEPC目前包含在15种癌症中差异表达的1803种蛋白质，这些蛋白质来自同行评议出版物中的65个质谱学(MS)实验。除了MS实验，还整合了来自相同文献的低通量实验数据和来自外部数据库的癌症相关基因，以提供一些验证信息。此外，DBDEPC将差异蛋白质与人类基因组中的重要结构变异联系起来，如拷贝数变异或单核苷酸多态，这可能有助于在DNA水平上解释蛋白质表达的变化。可以通过蛋白质标识符、描述或序列来查询数据库中的数据；检索到的蛋白质条目提供了在癌症中看到的差异表达模式，以及详细的注释。预计DBDEPC将成为蛋白质水平上癌症特征的参考数据库。该数据库由http://dbdepc.biosino.org/index/.提供
Cancer-related investigations have long been in the limelight of biomedical research. Years of effort from scientists and doctors worldwide have generated large amounts of data at the genome, transcriptome, proteome and even metabolome level, and DNA and RNA cancer signature databases have been established. Here we present a database of differentially expressed proteins in human cancers (dbDEPC), with the goal of collecting curated cancer proteomics data, providing a resource for information on protein-level expression changes, and exploring protein profile differences among different cancers. dbDEPC currently contains 1803 proteins differentially expressed in 15 cancers, curated from 65 mass spectrometry (MS) experiments in peer-reviewed publications. In addition to MS experiments, low-throughput experiment data from the same literatures and cancer-associated genes from external databases were also integrated to provide some validation information. Furthermore, dbDEPC associates differential proteins with important structural variations in the human genome, such as copy number variations or single nucleotide polymorphisms, which might be helpful for explaining changes in protein expression at the DNA level. Data in dbDEPC can be queried by protein identifier, description or sequence; the retrieved protein entry provides the differential expression pattern seen in cancers, along with detailed annotations. dbDEPC is expected to be a reference database for cancer signatures at the protein level. This database is provided at http://dbdepc.biosino.org/index/.
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DOI：
10.1016/s1672-0229(06)60029-6
发表时间：
2006-08
期刊：
Genomics, proteomics & bioinformatics
影响因子：
--
作者：
Deng SS;Xing TY;Zhou HY;Xiong RH;Lu YG;Wen B;Liu SQ;Yang HJ
通讯作者：
Yang HJ
影响因子：
4.4
作者：
Bouchal, Pavel;Roumeliotis, Theodoros;Garbis, Spiros D.
通讯作者：
Garbis, Spiros D.
影响因子：
4.4
作者：
Ralhan, Ranju;DeSouza, Leroi V.;Siu, K. W. Michael
通讯作者：
Siu, K. W. Michael
影响因子：
4.8
作者：
Ong, SE;Foster, LJ;Mann, M
通讯作者：
Mann, M
影响因子：
4
作者：
Semmes, O. John;Malik, Gunjan;Ward, Mike
通讯作者：
Ward, Mike