Full metadata record
DC FieldValueLanguage
dc.contributor.authorChung, Yun-Shengen_US
dc.contributor.authorLee, Wei-Hsunen_US
dc.contributor.authorTang, Chuan Yien_US
dc.contributor.authorLu, Chin Lungen_US
dc.date.accessioned2014-12-08T15:13:44Z-
dc.date.available2014-12-08T15:13:44Z-
dc.date.issued2007-07-01en_US
dc.identifier.issn0305-1048en_US
dc.identifier.urihttp://dx.doi.org/10.1093/nar/gkm275en_US
dc.identifier.urihttp://hdl.handle.net/11536/10621-
dc.description.abstractRE-MuSiC is a web-based multiple sequence alignment tool that can incorporate biological knowledge about structure, function, or conserved patterns regarding the sequences of interest. It accepts amino acid or nucleic acid sequences and a set of constraints as inputs. The constraints are pattern descriptions, instead of exact positions of fragments to be aligned together. The output is an alignment where for each pattern (constraint), an occurrence on each sequence can be found aligned together with those on the other sequences, in a manner that the overall alignment is optimized. Its predecessor, MuSiC, has been found useful by researchers since its release in 2004. However, it is noticed in applications that the pattern formulation adopted in MuSiC, namely, plain strings allowing mismatches, is not expressive and flexible enough. The constraint formulation adopted in RE-MuSiC is therefore enhanced to be regular expressions, which is convenient in expressing many biologically significant patterns like those collected in the PROSITE database, or structural consensuses that often involve variable ranges between conserved parts. Experiments demonstrate that RE-MuSiC can be used to help predict important residues and locate phylogenetically conserved structural elements. RE-MuSiC is available on-line at http://140.113.239.131/RE-MUSIC.en_US
dc.language.isoen_USen_US
dc.titleRE-MuSiC: a tool for multiple sequence alignment with regular expression constraintsen_US
dc.typeArticleen_US
dc.identifier.doi10.1093/nar/gkm275en_US
dc.identifier.journalNUCLEIC ACIDS RESEARCHen_US
dc.citation.volume35en_US
dc.citation.issueen_US
dc.citation.spageW639en_US
dc.citation.epageW644en_US
dc.contributor.department生物科技學系zh_TW
dc.contributor.department生物資訊及系統生物研究所zh_TW
dc.contributor.departmentDepartment of Biological Science and Technologyen_US
dc.contributor.departmentInstitude of Bioinformatics and Systems Biologyen_US
dc.identifier.wosnumberWOS:000255311500118-
dc.citation.woscount5-
Appears in Collections:Articles


Files in This Item:

  1. 000255311500118.pdf

If it is a zip file, please download the file and unzip it, then open index.html in a browser to view the full text content.