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題名 T-Coffee: tree-based consistency objective function for alignment evaluation
作者 張家銘
Magis, Cedrik;Taly, Jean-François;Bussotti, Giovanni;Chang, Jia-Ming;Tommaso, Paolo Di;Erb, Ionas
貢獻者 資科系
關鍵詞 MSA ; 3D structure ; Protein sequences ; Transmembrane protein ; Homolog sequences ; DNA/RNA sequences ; Promoter alignment ; RNA secondary structure
日期 2013-11
上傳時間 30-五月-2016 17:25:12 (UTC+8)
摘要 T-Coffee, for Tree-based consistency objective function for alignment evaluation, is a versatile multiple sequence alignment (MSA) method suitable for aligning virtually any type of biological sequences. T-Coffee provides more than a simple sequence aligner; rather it is a framework in which alternative alignment methods and/or extra information (i.e., structural, evolutionary, or experimental information) can be combined to reach more accurate and more meaningful MSAs. T-Coffee can be used either by running input data via the Web server (http://​tcoffee.​crg.​cat/​apps/​tcoffee/​index.​html) or by downloading the T-Coffee package. Here, we present how the package can be used in its command line mode to carry out the most common tasks and multiply align proteins, DNA, and RNA sequences. This chapter particularly emphasizes on the description of T-Coffee special flavors also called “modes,” designed to address particular biological problems.
關聯 Multiple Sequence Alignment Methods, Humana Press, pp.117-129
資料類型 book/chapter
DOI http://dx.doi.org/10.1007/978-1-62703-646-7_7
dc.contributor 資科系
dc.creator (作者) 張家銘zh_TW
dc.creator (作者) Magis, Cedrik;Taly, Jean-François;Bussotti, Giovanni;Chang, Jia-Ming;Tommaso, Paolo Di;Erb, Ionas
dc.date (日期) 2013-11
dc.date.accessioned 30-五月-2016 17:25:12 (UTC+8)-
dc.date.available 30-五月-2016 17:25:12 (UTC+8)-
dc.date.issued (上傳時間) 30-五月-2016 17:25:12 (UTC+8)-
dc.identifier.uri (URI) http://nccur.lib.nccu.edu.tw/handle/140.119/97016-
dc.description.abstract (摘要) T-Coffee, for Tree-based consistency objective function for alignment evaluation, is a versatile multiple sequence alignment (MSA) method suitable for aligning virtually any type of biological sequences. T-Coffee provides more than a simple sequence aligner; rather it is a framework in which alternative alignment methods and/or extra information (i.e., structural, evolutionary, or experimental information) can be combined to reach more accurate and more meaningful MSAs. T-Coffee can be used either by running input data via the Web server (http://​tcoffee.​crg.​cat/​apps/​tcoffee/​index.​html) or by downloading the T-Coffee package. Here, we present how the package can be used in its command line mode to carry out the most common tasks and multiply align proteins, DNA, and RNA sequences. This chapter particularly emphasizes on the description of T-Coffee special flavors also called “modes,” designed to address particular biological problems.
dc.format.extent 109 bytes-
dc.format.mimetype text/html-
dc.relation (關聯) Multiple Sequence Alignment Methods, Humana Press, pp.117-129
dc.subject (關鍵詞) MSA ; 3D structure ; Protein sequences ; Transmembrane protein ; Homolog sequences ; DNA/RNA sequences ; Promoter alignment ; RNA secondary structure
dc.title (題名) T-Coffee: tree-based consistency objective function for alignment evaluation
dc.type (資料類型) book/chapter
dc.identifier.doi (DOI) 10.1007/978-1-62703-646-7_7
dc.doi.uri (DOI) http://dx.doi.org/10.1007/978-1-62703-646-7_7