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Ahmed M. Moustafa et al.
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Toon Nicolay et al.
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A. Prasannavadhana et al.
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Dong Yu et al.
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The large-scale blast score ratio (LS-BSR) pipeline: a method to rapidly compare genetic content between bacterial genomes
Jason W. Sahl et al.
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Todd J. Treangen et al.
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K. W. Davenport et al.
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Kate J. Howell et al.
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Frederick A. Lainson et al.
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Jason R. Grant et al.
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Dongchun Guo et al.
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Geovana Brenner Michael et al.
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The Translocation Domain in Trimeric Autotransporter Adhesins Is Necessary and Sufficient for Trimerization and Autotransportation
Kornelia M. Mikula et al.
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Complete Genome Sequence of Pasteurella multocida HN06, a Toxigenic Strain of Serogroup D
Wenjing Liu et al.
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The Pfam protein families database
Marco Punta et al.
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Type V secretion: mechanism(s) of autotransport through the bacterial outer membrane
Jack C. Leo et al.
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Marcus Lechner et al.
BMC BIOINFORMATICS (2011)
Genome-wide evidence for positive selection and recombination in Actinobacillus pleuropneumoniae
Zhuofei Xu et al.
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Nabil-Fareed Alikhan et al.
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Tamimount Mohammadi et al.
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Thomas Nordahl Petersen et al.
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PHAST: A Fast Phage Search Tool
You Zhou et al.
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Zhuofei Xu et al.
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Nancy Y. Yu et al.
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Doug Hyatt et al.
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Ruiqiang Li et al.
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Christina Toft et al.
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Morgan N. Price et al.
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Christiam Camacho et al.
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Yesim Soyer et al.
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Kimberly A. Kline et al.
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Tristan Lefebure et al.
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Xibiao Tang et al.
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Lawrence A. Kelley et al.
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Haitham Sghaier et al.
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Ziheng Yang
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Baris E. Suzek et al.
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Johan Goris et al.
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Ivica Letunic et al.
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Gerard Talavera et al.
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GARD: a genetic algorithm for recombination detection
Sergei L. Kosakovsky Pond et al.
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Marina Harper et al.
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SL Chen et al.
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TC Bruen et al.
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CS Inatsuka et al.
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DA Fitzpatrick et al.
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Bayes empirical Bayes inference of amino acid sites under positive selection
ZH Yang et al.
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Sequence diversity and molecular evolution of the heat-modifiable outer membrane protein gene (ompA) of Mannheimia (Pasteurella) haemolytica, Mannheimia glucosida, and Pasteurella trehalosi
RL Davies et al.
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FS Berven et al.
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D Laslett et al.
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WSW Wong et al.
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EF Pettersen et al.
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S Guindon et al.
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SW Satola et al.
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I Cases et al.
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P Massari et al.
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HE Humphries et al.
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IK Jordan et al.
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J Lin et al.
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LK Tamm et al.
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BJ May et al.
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KM Townsend et al.
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A Krogh et al.
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S Mizan et al.
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C Notredame et al.
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LA Novotny et al.
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