STACK: Sequence Tag Alignment and Consensus Knowledgebase
STACK: Sequence Tag Alignment and Consensus Knowledgebase
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DOI：
10.1093/nar/29.1.234
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发表时间：
2001-01-01
影响因子：
14.9
通讯作者：
Hide, W
中科院分区：
文献类型：
--
作者：
Christoffels, A;van Gelder, A;Hide, W
STACK是一种用于检测和可视化发育和病理状态下表达的转录本变异的工具。该数据系统在表达状态的背景下从可用的公共数据组织和重建人类转录本。转录物的表达状态可以包括发育状态、病理关联、表达位点和表达的转录物的同种型。STACK共有转录本是从捕获和反映转录本多样性的不断增长的证据的簇中重建的。转录变体的全面捕获是通过使用一种新的聚类方法来实现的，该方法耐受子序列多样性并且不依赖于成对比对，这与其他基因索引项目相反。STACK每年至少生成四次，并且代表从GenBank提取的所有公开可用的人类EST数据的详尽处理。可以通过15个特定组织类别、一个与疾病有关的类别和一个全身指数来探讨这种经过处理的信息，并可通过万维网http：/www.sanbi.ac.za/Dbases.html查阅。STACK是一个广泛适用的资源，因为它是唯一一个重建的转录本数据库，其生成工具也可广泛获得（http：//www.sanbi.ac.za/CODES）。
STACK is a tool for detection and visualisation of expressed transcript variation in the context of developmental and pathological states. The data-system organises and reconstructs human transcripts from available public data in the context of expression state. The expression state of a transcript can include developmental state, pathological association, site of expression and isoform of expressed transcript. STACK consensus transcripts are reconstructed from clusters that capture and reflect the growing evidence of transcript diversity. The comprehensive capture of transcript variants is achieved by the use of a novel clustering approach that is tolerant of sub-sequence diversity and does not rely on pairwise alignment, This is in contrast with other gene indexing projects. STACK is generated at least four times a year and represents the exhaustive processing of ail publicly available human EST data extracted from GenBank. This processed information can be explored through 15 tissue-specific categories, a disease-related category and a whole-body index and is accessible via WWW at http:/www.sanbi.ac.za/ Dbases.html. STACK represents a broadly applicable resource, as it is the only reconstructed transcript database for which the tools for its generation are also broadly available (http://www.sanbi.ac.za/CODES).