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| 清华大学基础医学相关数据库以及工具软件介绍 |
| ATID | ATID从文献中收集了已知的300个基因的可变翻译现象，包含300条基因的650种可变转录起始位点信息，涵盖了现在可用的蛋白数据库（NCBI上的SWISS-PROT数据库和Entrez protein数据库）中相关可变转录起始位点信息。 | dbRES | dbRES是一个跨物种的包含各种类型的RNA编辑事件的数据库，包含5437条记录，主要提供被实验验证过的RNA位点信息编辑和检索服务。所有数据都是手动收集和整理的，来自于学术论文相关的研究成果和GenBank数据库。 | dbNEI | 神经-内分泌-免疫系统（NEI）的复杂相互作用是维持机体稳态的枢纽。dbNEI是一个NEI专题数据库，提供分子水平的神经内分泌调节的知识库，提供神经、内分泌、免疫系统的信号通路的查询系统，数据量大概几百兆。包括人类基因组基因的一般信息，神经、内分泌和免疫系统的相关蛋白。该系统将建立涉及神经、内分泌和免疫系统的信号通路上涉及的分子以及相关基因，并将这些信号通路、分子以及基因的改变与疾病联系起来。 | MiRAlign | MirAlign是基于序列和结构进行“小RNA预测”的工具软件，它采用序列和结构的方法进行基因组规模的miRNA预测，该工具根据用户输入的一段序列（长度在50～300），以及选择的参数，进行预测分析。 | MethCGI | MethCGI是目前唯一一个提供在线服务的CpG岛甲基化状态预测软件，其友好的界面可以帮助生物学家方便的预测感兴趣的CpG岛的甲基化状态。 | SubMito | Submito是国际上第一个用于蛋白质亚线粒体定位预测的在线服务。这一服务为相关的蛋白质组研究和生物医药领域的其他研究提供了一个遍历的工具。 | PhoScan | PhoScan提供磷酸化位点预测的网络服务，它根据用户提交的序列，程序在蛋白质磷酸化数据集PhosphoBase上进行预测。 |
部分数据库功能介绍 | MethCGI | Applied Biosystems simplify DNA methylation with free software: Applied Biosystems simplify DNA methylation with free software.The software, known as Methyl Primer Express, specifically automates the design of methylation-specific PCR or bisulphite sequencing primers as well as the methylSEQr Bisulphite Conversion Kit, a set of prepackaged reagents for rapid bisulphite conversion.Together these products simplify applications such as bisulphite sequencing and fragment analysis in DNA methylation experiments.（http://www.drugresearcher.com/news-by-product/news.asp?id=71445&idCat=43&k=Applied-Biosystems--DNA-methylation-DNA-polymerases） | Illumina Introduces Genome-Wide DNA Methylation Profiling Using Highly Acclaimed Infinium(R) Assay: Illumina Introduces Genome-Wide DNA Methylation Profiling Using Highly Acclaimed Infinium(R) Assay.SAN DIEGO--(BUSINESS WIRE)--Illumina, Inc. (NASDAQ:ILMN - News) today introduced a 12-sample Infinium DNA Methylation BeadChip for use in epigenetic research. With this new high-density solution, researchers can assay approximately 27,000 CpG sites per sample, covering more than 14,000 well-annotated genes with single CpG resolution. Content for this panel was derived from genes described in the National Center for Biotechnology Information (NCBI) Consensus Coding Sequence (CCDS) Database, and features a core set of protein-coding regions that are consistently annotated and of high quality. In addition, the new array includes more than 1,000 cancer-related genes and 200 CpG sites located within CpG islands found in promoter regions of microRNA (miRNA) genes. Full commercial shipments of Illumina’s Infinium DNA Methylation Panel are expected for Q1 2008.（http://biz.yahoo.com/bw/071025/20071025005491.html?.v=1） | SubMito | SubMito is the first computational system for predicting protein submitochondria locations from its primary sequence. SubMito is designed and implemented with Java. This site is a web-like front end for SubMito system. Users can access SubMito on the server side by uploading a FASTA file or entering sequence below. The prediction result will be saved on server, and a link to the result file will be provided. Users can use this link to download the result file. |
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数据库最新更新及工具软件升级
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ATID
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dbRES
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2006年8月进行了第一次升级，修改了部分bug，提供了网页服务
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2006年9月进行了三次升级，更新了数据，并提供免费镜像服务
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2007年3月进行了第五次数据库升级，更新了数据库数据，并修改了部分网页服务bug。
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dbNEI
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MiRAlign
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MethCGI
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Updated in Nov., 2006, fixed some bugs and added some materials related to our method
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SubMito
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Submito的后续工作正在进行中，随着数据的积累，线粒体定位预测的精度将不断提高。相关的叶绿体定位预测的工作也即将开展。
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PhoScan
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