This article introduces the SARA-Coffee web server; a service allowing the online computation of 3D structure based multiple RNA sequence alignments. The server makes it possible to combine sequences with and without known 3D structures. Given a set of sequences SARA-Coffee outputs a multiple sequence alignment along with a reliability index for every sequence, column and aligned residue. SARA-Coffee combines SARA, a pairwise structural RNA aligner with the R-Coffee multiple RNA aligner in a way that has been shown to improve alignment accuracy over most sequence aligners when enough structural data is available. The server can be accessed from http://tcoffee.crg.cat/apps/tcoffee/do: saracoffee. © 2014 The Author(s).
Tommaso, P.D., Bussotti, G., Kemena, C., Capriotti, E., Chatzou, M., Prieto, P., et al. (2014). SARA-Coffee web server, a tool for the computation of RNA sequence and structure multiple alignments. NUCLEIC ACIDS RESEARCH, 42(W1), W356-W360 [10.1093/nar/gku459].
SARA-Coffee web server, a tool for the computation of RNA sequence and structure multiple alignments
CAPRIOTTI, EMIDIO;NOTREDAME, CEDRIC
2014
Abstract
This article introduces the SARA-Coffee web server; a service allowing the online computation of 3D structure based multiple RNA sequence alignments. The server makes it possible to combine sequences with and without known 3D structures. Given a set of sequences SARA-Coffee outputs a multiple sequence alignment along with a reliability index for every sequence, column and aligned residue. SARA-Coffee combines SARA, a pairwise structural RNA aligner with the R-Coffee multiple RNA aligner in a way that has been shown to improve alignment accuracy over most sequence aligners when enough structural data is available. The server can be accessed from http://tcoffee.crg.cat/apps/tcoffee/do: saracoffee. © 2014 The Author(s).I documenti in IRIS sono protetti da copyright e tutti i diritti sono riservati, salvo diversa indicazione.
