Genome Biology

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Different evolutionary patterns between young duplicate genes in the human genome

Peng Zhang, Zhenglong Gu and Wen-Hsiung Li*

Genome Biology 2003, 4:R56 doi:10.1186/gb-2003-4-9-r56

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Research article   Open Access

Local synteny and codon usage contribute to asymmetric sequence divergence of Saccharomyces cerevisiae gene duplicates

Lijing Bu, Ulfar Bergthorsson, Vaishali Katju BMC Evolutionary Biology 2011, 11:279 (28 September 2011)

Research article   Open Access

Molecular evolution of the duplicated TFIIAγ genes in Oryzeae and its relatives

Hong-Zheng Sun, Song Ge BMC Evolutionary Biology 2010, 10:128 (4 May 2010)

Research article   Open Access Highly Accessed

Comparative transcriptomics in the Triticeae

Andreas W Schreiber, Tim Sutton, Rico A Caldo, Elena Kalashyan, Ben Lovell, Gwenda Mayo, Gary J Muehlbauer, Arnis Druka, Robbie Waugh, Roger P Wise, Peter Langridge, Ute Baumann BMC Genomics 2009, 10:285 (29 June 2009)

Research   Open Access

Coding region structural heterogeneity and turnover of transcription start sites contribute to divergence in expression between duplicate genes

Chungoo Park, Kateryna D Makova Genome Biology 2009, 10:R10 (28 January 2009)

Gene expression data for duplicated gene pairs in humans provides insights into the regulatory factors affecting the expression divergence of these genes and implications for their evolution.

Research   Open Access Highly Accessed

Preferential regulation of duplicated genes by microRNAs in mammals

Jingjing Li, Gabriel Musso, Zhaolei Zhang Genome Biology 2008, 9:R132 (26 August 2008)

Analysis of duplicate genes and predicted microRNA targets in human and mouse shows that microRNAs are important in how the regulatory patterns of mammalian paralogs have evolved.

Research article   Open Access

The genomic distribution of intraspecific and interspecific sequence divergence of human segmental duplications relative to human/chimpanzee chromosomal rearrangements

Tomàs Marques-Bonet, Ze Cheng, Xinwei She, Evan E Eichler, Arcadi Navarro BMC Genomics 2008, 9:384 (12 August 2008)

Research article   Open Access

Uncovering rate variation of lateral gene transfer during bacterial genome evolution

Weilong Hao, G Brian Golding BMC Genomics 2008, 9:235 (20 May 2008)

Research article   Open Access

Modeling protein network evolution under genome duplication and domain shuffling

Kirill Evlampiev, Hervé Isambert BMC Systems Biology 2007, 1:49 (13 November 2007)

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On the association between chromosomal rearrangements and genic evolution in humans and chimpanzees

Tomàs Marques-Bonet, Jesús Sànchez-Ruiz, Lluís Armengol, Razi Khaja, Jaume Bertranpetit, Núria Lopez-Bigas, Mariano Rocchi, Elodie Gazave, Arcadi Navarro Genome Biology 2007, 8:R230 (30 October 2007)

Analysis of the genes located in rearranged human and chimpanzee chromosomes identified lower divergence than for those in colinear chromosomes.

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A genome-wide survey of changes in protein evolutionary rates across four closely related species of Saccharomyces sensu stricto group

Yoshihiro Kawahara, Tadashi Imanishi BMC Evolutionary Biology 2007, 7:9 (29 January 2007)

Methodology article   Open Access Highly Accessed

Improving the specificity of high-throughput ortholog prediction

Debra L Fulton, Yvonne Y Li, Matthew R Laird, Benjamin GS Horsman, Fiona M Roche, Fiona SL Brinkman BMC Bioinformatics 2006, 7:270 (28 May 2006)

A new high-throughput method, Ortholuge, utilizes phylogenetic distance ratios to distinguish orthologous genes from those that are paralogous, and can be used on bacteria and eukaryotes on a genome-wide scale.

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Fast rate of evolution in alternatively spliced coding regions of mammalian genes

Ekaterina O Ermakova, Ramil N Nurtdinov, Mikhail S Gelfand BMC Genomics 2006, 7:84 (18 April 2006)

A comparison of orthologous human and mouse genes indicates that alternatively spliced exons tend to have a faster rate of evolution than constitutive exons, with the rate of both synonymous and nonsynonymous substitutions increased.

Research article   Open Access

Many genes in fish have species-specific asymmetric rates of molecular evolution

Dirk Steinke, Walter Salzburger, Ingo Braasch, Axel Meyer BMC Genomics 2006, 7:20 (8 February 2006)

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Rapid and asymmetric divergence of duplicate genes in the human gene coexpression network

Wen-Yu Chung, Reka Albert, Istvan Albert, Anton Nekrutenko, Kateryna D Makova BMC Bioinformatics 2006, 7:46 (27 January 2006)

When genes duplicate, they quickly diverge, losing shared coexpressed partners and acquiring different new partners according to a human coexpression network analysis that utilized tissue-specific microarray data.

Research article   Open Access

A combined approach exploring gene function based on Worm-Human Orthology

Ivica Tamas, Emily Hodges, Patrick Dessi, Robert Johnsen, Ana Vaz Gomes BMC Genomics 2005, 6:65 (6 May 2005)

Research article   Open Access

Duplicated genes evolve slower than singletons despite the initial rate increase

I King Jordan, Yuri I Wolf, Eugene V Koonin BMC Evolutionary Biology 2004, 4:22 (6 July 2004)

Following gene duplication there is a period of rapid evolution, which then slows down in cases where the original gene has an important biological function and the duplicate is retained.