Research article  

Slow but not low: genomic comparisons reveal slower evolutionary rate and higher dN/dS in conifers compared to angiosperms

Emmanuel Buschiazzo, Carol Ritland, Jörg Bohlmann, Kermit Ritland BMC Evolutionary Biology 2012, 12:8 (20 January 2012)

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Research article  

MSACompro: protein multiple sequence alignment using predicted secondary structure, solvent accessibility, and residue-residue contacts

Xin Deng, Jianlin Cheng BMC Bioinformatics 2011, 12:472 (14 December 2011)

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Research article  

Automatic detection of anchor points for multiple sequence alignment

Florian Pitschi, Claudine Devauchelle, Eduardo Corel BMC Bioinformatics 2010, 11:445 (2 September 2010)

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Research article  

Mitochondrial phylogenomics of the Bivalvia (Mollusca): searching for the origin and mitogenomic correlates of doubly uniparental inheritance of mtDNA

Hélène Doucet-Beaupré, Sophie Breton, Eric G Chapman, Pierre U Blier, Arthur E Bogan, Donald T Stewart, Walter R Hoeh BMC Evolutionary Biology 2010, 10:50 (18 February 2010)

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Research article  

Towards realistic benchmarks for multiple alignments of non-coding sequences

Jaebum Kim, Saurabh Sinha BMC Bioinformatics 2010, 11:54 (26 January 2010)

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Software  

JANE: efficient mapping of prokaryotic ESTs and variable length sequence reads on related template genomes

Chunguang Liang, Alexander Schmid, María López-Sánchez, Andres Moya, Roy Gross, Jörg Bernhardt, Thomas Dandekar BMC Bioinformatics 2009, 10:391 (29 November 2009)

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Software  

OrthoSelect: a protocol for selecting orthologous groups in phylogenomics

Fabian Schreiber, Kerstin Pick, Dirk Erpenbeck, Gert Wörheide, Burkhard Morgenstern BMC Bioinformatics 2009, 10:219 (16 July 2009)

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Software review  

A software pipeline for processing and identification of fungal ITS sequences

R Henrik Nilsson, Gunilla Bok, Martin Ryberg, Erik Kristiansson, Nils Hallenberg Source Code for Biology and Medicine 2009, 4:1 (15 January 2009)

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Short report  

Stability of multiple alignments and phylogenetic trees: an analysis of ABC-transporter proteins family

Holger Wagner, Burkhard Morgenstern, Andreas Dress Algorithms for Molecular Biology 2008, 3:15 (6 November 2008)

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