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This article is part of the supplement: Italian Society of Bioinformatics (BITS): Annual Meeting 2011

Open Access Research

Accurate multiple sequence alignment of transmembrane proteins with PSI-Coffee

Jia-Ming Chang, Paolo Di Tommaso, Jean-François Taly and Cedric Notredame*

Author Affiliations

Bioinformatics and Genomics program, Centre for Genomic Regulation (CRG) and UPF, Barcelona 08003, Spain

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BMC Bioinformatics 2012, 13(Suppl 4):S1  doi:10.1186/1471-2105-13-S4-S1

Published: 28 March 2012

Additional files

Additional file 1:

The core region of BAliBASE 2. For BAliBASE 2, authors did not publish the XML file allowing automated use of these blocks. The location of the block is only available in HTML file, the uppercase of character (i.e., http://bips.u-strasbg.fr/en/Products/Databases/BAliBASE2/ref7/test/msl_ref7.html webcite). We have generated the XML following the original BAliBASE annotation.

Format: PDF Size: 1.1MB Download file

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Open Data

Additional file 2:

The performance of each TMP family by individual database. default means T-Coffee without homology extension. Others are PSI-Coffee searching against corresponding databases. The construction of databases is explained in "Methods" section.

Format: PDF Size: 86KB Download file

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Open Data