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General heterotachy and distance method adjustments.

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General heterotachy and distance method adjustments.
Mol Biol Evol. 2009 Dec;26(12):2689-97
Authors: Wu J, Susko E
Abstract
Heterotachy is a general term to describe positions in a sequence t…

PROCOV: maximum likelihood estimation of protein phylogeny under covarion models and site-specific covarion pattern analysis.

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PROCOV: maximum likelihood estimation of protein phylogeny under covarion models and site-specific covarion pattern analysis.
BMC Evol Biol. 2009;9:225
Authors: Wang HC, Susko E, Roger AJ
Abstract

Reproducing the manual annotation of multiple sequence alignments using a SVM classifier.

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Reproducing the manual annotation of multiple sequence alignments using a SVM classifier.
Bioinformatics. 2009 Dec 1;25(23):3093-8
Authors: Blouin C, Perry S, Lavell A, Susko E, Roger AJ
Abstract

Phylogenetic distributions and histories of proteins involved in anaerobic pyruvate metabolism in eukaryotes.

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Phylogenetic distributions and histories of proteins involved in anaerobic pyruvate metabolism in eukaryotes.
Mol Biol Evol. 2010 Feb;27(2):311-24
Authors: Hug LA, Stechmann A, Roger AJ
Abstract

U3 snoRNA genes are multi-copy and frequently linked to U5 snRNA genes in Euglena gracilis.

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U3 snoRNA genes are multi-copy and frequently linked to U5 snRNA genes in Euglena gracilis.
BMC Genomics. 2009;10:528
Authors: Charette JM, Gray MW
Abstract
BACKGROUND: U3 snoRNA is a box C/…

RNA editing in plant mitochondria: 20 years later.

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RNA editing in plant mitochondria: 20 years later.
IUBMB Life. 2009 Dec;61(12):1101-4
Authors: Gray MW
Abstract
In 1989, three laboratories (in Canada, France and Germany) independently and s…

Intein-mediated cyclization of bacterial acyl carrier protein stabilizes its folded conformation but does not abolish function.

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Intein-mediated cyclization of bacterial acyl carrier protein stabilizes its folded conformation but does not abolish function.
J Biol Chem. 2010 Mar 19;285(12):8605-14
Authors: Volkmann G, Murphy PW, Rowla…

The path to RNA editing in plant mitochondria: the Halifax chapter.

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The path to RNA editing in plant mitochondria: the Halifax chapter.
IUBMB Life. 2009 Dec;61(12):1114-7
Authors: Gray MW
Abstract
A single C/T difference between gene and cDNA within the 5′-un…

Identifying biologically relevant differences between metagenomic communities.

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Identifying biologically relevant differences between metagenomic communities.
Bioinformatics. 2010 Mar 15;26(6):715-21
Authors: Parks DH, Beiko RG
Abstract
MOTIVATION: Metagenomics is the st…

Characterization of halotolerant Bicosoecida and Placididea (Stramenopila) that are distinct from marine forms, and the phylogenetic pattern of salinity preference in heterotrophic stramenopiles.

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Characterization of halotolerant Bicosoecida and Placididea (Stramenopila) that are distinct from marine forms, and the phylogenetic pattern of salinity preference in heterotrophic stramenopiles.
Environ Microbiol. 2…