4.5 Article

A Tight Link between Orthologs and Bidirectional Best Hits in Bacterial and Archaeal Genomes

Related references

Note: Only part of the references are listed.
Article Biochemical Research Methods

Quality of Computationally Inferred Gene Ontology Annotations

Nives Skunca et al.

PLOS COMPUTATIONAL BIOLOGY (2012)

Article Biochemical Research Methods

On the Use of Gene Ontology Annotations to Assess Functional Similarity among Orthologs and Paralogs: A Short Report

Paul D. Thomas et al.

PLOS COMPUTATIONAL BIOLOGY (2012)

Article Biochemical Research Methods

Resolving the Ortholog Conjecture: Orthologs Tend to Be Weakly, but Significantly, More Similar in Function than Paralogs

Adrian M. Altenhoff et al.

PLOS COMPUTATIONAL BIOLOGY (2012)

Article Biochemical Research Methods

Domain architecture conservation in orthologs

Kristoffer Forslund et al.

BMC BIOINFORMATICS (2011)

Article Biochemical Research Methods

Positional orthology: putting genomic evolutionary relationships into context

Colin N. Dewey

BRIEFINGS IN BIOINFORMATICS (2011)

Article Biochemical Research Methods

Evidence for short-time divergence and long-time conservation of tissue-specific expression after gene duplication

Jaime Huerta-Cepas et al.

BRIEFINGS IN BIOINFORMATICS (2011)

Article Biochemical Research Methods

Computational methods for Gene Orthology inference

David M. Kristensen et al.

BRIEFINGS IN BIOINFORMATICS (2011)

Article Biochemical Research Methods

Testing the Ortholog Conjecture with Comparative Functional Genomic Data from Mammals

Nathan L. Nehrt et al.

PLOS COMPUTATIONAL BIOLOGY (2011)

Article Multidisciplinary Sciences

FastTree 2-Approximately Maximum-Likelihood Trees for Large Alignments

Morgan N. Price et al.

PLOS ONE (2010)

Review Biochemistry & Molecular Biology

Evolution of genome architecture

Eugene V. Koonin

INTERNATIONAL JOURNAL OF BIOCHEMISTRY & CELL BIOLOGY (2009)

Article Biochemistry & Molecular Biology

Evolutionary constraints on structural similarity in orthologs and paralogs

Mark E. Peterson et al.

PROTEIN SCIENCE (2009)

Article Biochemical Research Methods

Phylogenetic and Functional Assessment of Orthologs Inference Projects and Methods

Adrian M. Altenhoff et al.

PLOS COMPUTATIONAL BIOLOGY (2009)

Article Evolutionary Biology

Assessing the evolutionary rate of positional orthologous genes in prokaryotes using synteny data

Frederic Lemoine et al.

BMC EVOLUTIONARY BIOLOGY (2007)

Article Biotechnology & Applied Microbiology

Benchmarking ortholog identification methods using functional genomics data

Tim Hulsen et al.

GENOME BIOLOGY (2006)

Article Biochemistry & Molecular Biology

MUSCLE: multiple sequence alignment with high accuracy and high throughput

RC Edgar

NUCLEIC ACIDS RESEARCH (2004)

Article Biotechnology & Applied Microbiology

Evolution of mosaic operons by horizontal gene transfer and gene displacement in situ

MV Omelchenko et al.

GENOME BIOLOGY (2003)

Letter Genetics & Heredity

Orthology, paralogy and proposed classification for paralog subtypes

ELL Sonnhammer et al.

TRENDS IN GENETICS (2002)

Letter Biochemistry & Molecular Biology

The closest BLAST hit is often not the nearest neighbor

LB Koski et al.

JOURNAL OF MOLECULAR EVOLUTION (2001)

Review Genetics & Heredity

Homology - a personal view on some of the problems

WM Fitch

TRENDS IN GENETICS (2000)