Age distribution of human gene families shows significant roles of both large- and small-scale duplications in vertebrate evolution

CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice

Thompson, J. D., Higgins, D. G., & Gibson, T. J. (1994) · Nucleic Acids Research · doi:10.1093/nar/22.22.4673 · Cited by 64,617 · see citing works

The neighbor-joining method: a new method for reconstructing phylogenetic trees.

Saitou, N., & Nei, M. (1987) · Molecular Biology and Evolution · doi:10.1093/oxfordjournals.molbev.a040454 · Cited by 59,962 · see citing works

Initial sequencing and analysis of the human genome

International Human Genome Sequencing Consortium, Whitehead Institute for Biomedical Research, C. F. G. R., Lander, E. S., Linton, L. M., Birren, B., Nusbaum, C., Zody, M. C., Baldwin, J., Devon, K., Dewar, K., et al. (2001) · Nature · doi:10.1038/35057062 · Cited by 24,216 · see citing works

The sequence of the human genome

Venter, J. C., Adams, M. D., Myers, E. W., Li, P. W., Mural, R. J., Sutton, G. G., Smith, H. O., Yandell, M., Evans, C. A., Holt, R. A., et al. (2001) · Science · doi:10.1126/science.1058040 · Cited by 13,909 · see citing works

Evolution by Gene Duplication

Ohno, S. (1970) · doi:10.1007/978-3-642-86659-3 · Cited by 7,833 · see citing works

The Evolutionary Fate and Consequences of Duplicate Genes

Lynch, M., & Conery, J. S. (2000) · Science · doi:10.1126/science.290.5494.1151 · Cited by 4,988 · see citing works

A molecular timescale for vertebrate evolution

Kumar, S., & Hedges, S. B. (1998) · Nature · doi:10.1038/31927 · Cited by 1,936 · see citing works

Phylogenetic test of the molecular clock and linearized trees.

Takezaki, N., Rzhetsky, A., & Nei, M. (1995) · Molecular Biology and Evolution · doi:10.1093/oxfordjournals.molbev.a040259 · Cited by 826 · see citing works

Gene and genome duplications in vertebrates: the one-to-four (-to-eight in fish) rule and the evolution of novel gene functions

Meyer, A., & Schartl, M. (1999) · Current Opinion in Cell Biology · doi:10.1016/s0955-0674(99)00039-3 · Cited by 821 · see citing works

Evolution by the birth-and-death process in multigene families of the vertebrate immune system

Nei, M., Gu, X., & Sitnikova, T. Y. (1997) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.94.15.7799 · Cited by 794 · see citing works

Yesterday's polyploids and the mystery of diploidization

Wolfe, K. H. (2001) · Nature Reviews Genetics · doi:10.1038/35072009 · Cited by 767 · see citing works

Extensive genomic duplication during early chordate evolution

McLysaght, A., Hokamp, K., & Wolfe, K. H. (2002) · Nature Genetics · doi:10.1038/ng884 · Cited by 530 · see citing works

Evolution of the Vertebrate Genome as Reflected in Paralogous Chromosomal Regions in Man and the House Mouse

Lundin, L. G. (1993) · Genomics · doi:10.1006/geno.1993.1133 · Cited by 477 · see citing works

Evolutionary analyses of the human genome

Li, W., Gu, Z., Wang, H., & Nekrutenko, A. (2001) · Nature · doi:10.1038/35057039 · Cited by 474 · see citing works

Gen(om)e duplications in the evolution of early vertebrates

Sidow, A. (1996) · Current Opinion in Genetics & Development · doi:10.1016/s0959-437x(96)80026-8 · Cited by 446 · see citing works

Recent duplication, domain accretion and the dynamic mutation of the human genome

Eichler, E. E. (2001) · Trends in Genetics · doi:10.1016/s0168-9525(01)02492-1 · Cited by 331 · see citing works

Estimation of divergence times from multiprotein sequences for a few mammalian species and several distantly related organisms

Nei, M., Xu, P., & Glazko, G. (2001) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.051611498 · Cited by 329 · see citing works

Vertebrate evolution by interspecific hybridisation – are we polyploid?

Spring, J. (1997) · FEBS Letters · doi:10.1016/s0014-5793(96)01351-8 · Cited by 297 · see citing works

Comparable Rates of Gene Loss and Functional Divergence After Genome Duplications Early in Vertebrate Evolution

Nadeau, J. H., & Sankoff, D. (1997) · Genetics · doi:10.1093/genetics/147.3.1259 · Cited by 234 · see citing works

Zebrafish--the Canonical Vertebrate

Fishman, M. C. (2001) · Science · doi:10.1126/science.1066652 · Cited by 226 · see citing works

Phylogenies of Developmentally Important Proteins Do Not Support the Hypothesis of Two Rounds of Genome Duplication Early in Vertebrate History

Hughes, A. L. (1999) · Journal of Molecular Evolution · doi:10.1007/pl00006499 · Cited by 180 · see citing works

Duplication of large genomic regions during the evolution of vertebrate homeobox genes.

Schughart, K., Kappen, C., & Ruddle, F. (1989) · Proceedings of the National Academy of Sciences of the United States of America · doi:10.1073/pnas.86.18.7067 · Cited by 125 · see citing works

Gene Duplication and Evolution

Long, M., & Thornton, K. (2001) · Science · doi:10.1126/science.293.5535.1551a · Cited by 120 · see citing works

Ancient Genome Duplications Did Not Structure the HumanHox-Bearing ChromosomesPreprint

Hughes, A. L., da Silva, J., & Friedman, R. (2001) · Genome Research · doi:10.1101/gr.160001 · Cited by 119 · see citing works

Evolution of gene families and relationship with organismal evolution: rapid divergence of tissue-specific genes in the early evolution of chordates

Iwabe, N., Kuma, K., & Miyata, T. (1996) · Molecular Biology and Evolution · doi:10.1093/oxfordjournals.molbev.a025609 · Cited by 107 · see citing works

Ancient Genome Duplications Did Not Structure the Human Hox-Bearing ChromosomesPreprint

Hughes, A., da Silva, J., & Friedman, R. (2001) · Genome Research · doi:10.1101/gr.gr-1600r · Cited by 105 · see citing works

Evolution and divergence of sodium channel genes in vertebrates

Lopreato, G. F., Lu, Y. C., Southwell, A. L., Atkinson, N. S., Hillis, D. M., Wilcox, T. P., & Zakon, H. H. (2001) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.131171798 · Cited by 89 · see citing works

Evolutionary Patterns of Gene Families Generated in the Early Stage of Vertebrates

Wang, Y., & Gu, X. (2000) · Journal of Molecular Evolution · doi:10.1007/s002390010069 · Cited by 84 · see citing works

Early Metazoan Divergence Was About 830 Million Years Ago

Gu, X. (1998) · Journal of Molecular Evolution · doi:10.1007/pl00013150 · Cited by 82 · see citing works

An Estimate of Divergence Time of Parazoa and Eumetazoa and That of Cephalochordata and Vertebrata by Aldolase and Triose Phosphate Isomerase Clocks

Nikoh, N., Iwabe, N., Kuma, K.-I., Ohno, M., Sugiyama, T., Watanabe, Y., Yasui, K., Shi-cui, Z., Hori, K., Shimura, Y., et al. (1997) · Journal of Molecular Evolution · doi:10.1007/pl00006208 · Cited by 79 · see citing works

Is Tetralogy True? Lack of Support for the “One-to-Four Rule”

Martin, A. (2001) · Molecular Biology and Evolution · doi:10.1093/oxfordjournals.molbev.a003723 · Cited by 70 · see citing works

The protein kinase complement of the human genome

Manning, G., Whyte, D. B., Martinez, R., Hunter, T., & Sudarsanam, S. (2002) · Science · doi:10.1126/science.1075762 · Cited by 8,145 · see citing works

Two Rounds of Whole Genome Duplication in the Ancestral Vertebrate

Dehal, P., & Boore, J. L. (2005) · PLoS Biology · doi:10.1371/journal.pbio.0030314 · Cited by 1,526 · see citing works

Gene map of the extended human MHC

Horton, R., Wilming, L. G., Rand, V., Lovering, R. C., Bruford, E. A., Khodiyar, V., Lush, M. J., Povey, S., Talbot, C. C., Wright, M. W., et al. (2004) · Nature Reviews Genetics · doi:10.1038/nrg1489 · Cited by 1,201 · see citing works

The Genome of the Sea Urchin <i>Strongylocentrotus purpuratus</i>

Sodergren, E., Weinstock, G. M., Davidson, E. H., Cameron, R. A., Gibbs, R. A., Angerer, R. C., Angerer, L. M., Arnone, M. I., Burgess, D. R., Burke, R. D., et al. (2006) · Science · doi:10.1126/science.1133609 · Cited by 1,132 · see citing works

Functional Divergence of Duplicated Genes Formed by Polyploidy during Arabidopsis Evolution[W]

Blanc, G., & Wolfe, K. H. (2004) · The Plant Cell · doi:10.1105/tpc.021410 · Cited by 1,068 · see citing works

From 2R to 3R: evidence for a fish‐specific genome duplication (FSGD)

Meyer, A., & de Peer, Y. V. (2005) · BioEssays · doi:10.1002/bies.20293 · Cited by 1,047 · see citing works

The Genome Sequence of Caenorhabditis briggsae: A Platform for Comparative Genomics

Stein, L. D., Bao, Z., Blasiar, D., Blumenthal, T., Brent, M. R., Chen, N., Chinwalla, A., Clarke, L., Clee, C. M., Coghlan, A., et al. (2003) · PLoS Biology · doi:10.1371/journal.pbio.0000045 · Cited by 931 · see citing works

Duplication and Divergence: The Evolution of New Genes and Old Ideas

Taylor, J. S., & Raes, J. (2004) · Annual Review of Genetics · doi:10.1146/annurev.genet.38.072902.092831 · Cited by 911 · see citing works

Genes duplicated by polyploidy show unequal contributions to the transcriptome and organ-specific reciprocal silencing

Adams, K. L., Cronn, R., Percifield, R. J., & Wendel, J. F. (2003) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0630618100 · Cited by 819 · see citing works

Widespread genome duplications throughout the history of flowering plantsPreprint

Cui, L., Wall, P. K., Leebens‐Mack, J., Lindsay, B. G., Soltis, P. S., Doyle, J. J., Soltis, P. S., Carlson, J. E., Arumuganathan, K., Bara­kat, A., et al. (2006) · Genome Research · doi:10.1101/gr.4825606 · Cited by 738 · see citing works

A Recent Polyploidy Superimposed on Older Large-Scale Duplications in the <i>Arabidopsis</i> Genome

Blanc, G., Hokamp, K., & Wolfe, K. H. (2003) · Genome Research · doi:10.1101/gr.751803 · Cited by 724 · see citing works

Advances in the study of polyploidy sincePlant speciation

Soltis, P. S., Soltis, P. S., & Tate, J. A. (2003) · New Phytologist · doi:10.1046/j.1469-8137.2003.00948.x · Cited by 720 · see citing works

DNA sequence and analysis of human chromosome 9

Humphray, S., Oliver, K., Hunt, A. R., Plumb, R. W., Loveland, J. E., Howe, K., Andrews, T. D., Searle, S., Hunt, S. E., Scott, C., et al. (2004) · Nature · doi:10.1038/nature02465 · Cited by 640 · see citing works

Extensive genomic duplication during early chordate evolution

McLysaght, A., Hokamp, K., & Wolfe, K. H. (2002) · Nature Genetics · doi:10.1038/ng884 · Cited by 530 · see citing works

Fugu Genome Analysis Provides Evidence for a Whole-Genome Duplication Early During the Evolution of Ray-Finned Fishes

Christoffels, A. G., Koh, E. G. L., Chia, J.-M., Brenner, S., Aparicio, S. A. J. R., & Venkatesh, B. (2004) · Molecular Biology and Evolution · doi:10.1093/molbev/msh114 · Cited by 526 · see citing works

Major events in the genome evolution of vertebrates: Paranome age and size differ considerably between ray-finned fishes and land vertebrates

Vandepoele, K., Vos, W. D., Taylor, J. S., Meyer, A., & de Peer, Y. V. (2004) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0307968100 · Cited by 521 · see citing works

Reconstruction of the Vertebrate Ancestral Genome Reveals Dynamic Genome Reorganization in Early Vertebrates

Nakatani, Y., Takeda, H., Kohara, Y., & Morishita, S. (2007) · Springer eBooks · doi:10.1007/978-4-431-92691-7_20 · Cited by 484 · see citing works

Structural Dynamics of Eukaryotic Chromosome Evolution

Eichler, E. E., & Sankoff, D. (2003) · Science · doi:10.1126/science.1086132 · Cited by 404 · see citing works

Subfunctionalization of duplicated genes as a transition state to neofunctionalization

Rastogi, S., & Liberles, D. A. (2005) · BMC Evolutionary Biology · doi:10.1186/1471-2148-5-28 · Cited by 397 · see citing works

The gain and loss of genes during 600 million years of vertebrate evolution

Blomme, T., Vandepoele, K., Bodt, S. D., Simillion, C., Maere, S., & de Peer, Y. V. (2006) · Genome biology · doi:10.1186/gb-2006-7-5-r43 · Cited by 383 · see citing works

Epigenetic phenomena and the evolution of plant allopolyploids

Liu, B. (2003) · Molecular Phylogenetics and Evolution · doi:10.1016/s1055-7903(03)00213-6 · Cited by 297 · see citing works

The DNA sequence and analysis of human chromosome 6

Mungall, A. J. J., Palmer, S., Sims, S. K., Edwards, C. A., Ashurst, J. L., Wilming, L. G., Jones, M. C., Horton, R., Hunt, S. E., Scott, C., et al. (2003) · Nature · doi:10.1038/nature02055 · Cited by 281 · see citing works

Comparative and developmental study of the immune system in Xenopus

Robert, J., & Ohta, Y. (2009) · Developmental Dynamics · doi:10.1002/dvdy.21891 · Cited by 270 · see citing works

Gene Duplication: A Drive for Phenotypic Diversity and Cause of Human Disease

Conrad, B., & Antonarakis, S. E. (2007) · Annual Review of Genomics and Human Genetics · doi:10.1146/annurev.genom.8.021307.110233 · Cited by 267 · see citing works

Genomic Organization of the Mammalian Mhc

Kumánovics, A., Takada, T., & Lindahl, K. F. (2003) · Annual Review of Immunology · doi:10.1146/annurev.immunol.21.090501.080116 · Cited by 247 · see citing works

The 2R hypothesis: an update

Kasahara, M. (2007) · Current Opinion in Immunology · doi:10.1016/j.coi.2007.07.009 · Cited by 243 · see citing works

Recent Duplication of the Common Carp (Cyprinus carpio L.) Genome as Revealed by Analyses of Microsatellite Loci

David, L. (2003) · Molecular Biology and Evolution · doi:10.1093/molbev/msg173 · Cited by 243 · see citing works

Timing and mechanism of ancient vertebrate genome duplications – the adventure of a hypothesis

PANOPOULOU, G., & Poustka, A. J. (2005) · Trends in Genetics · doi:10.1016/j.tig.2005.08.004 · Cited by 231 · see citing works

Ancestral reconstruction of segmental duplications reveals punctuated cores of human genome evolution

Jiang, Z., Tang, H., Ventura, M., Cardone, M. F., Marquès‐Bonet, T., She, X., Pevzner, P. A., & Eichler, E. E. (2007) · Nature Genetics · doi:10.1038/ng.2007.9 · Cited by 212 · see citing works

Data-Mining Approaches Reveal Hidden Families of Proteases in the Genome of Malaria ParasitePreprint

Wu, Y., Wang, X., Liu, X., & Wang, Y. (2003) · Genome Research · doi:10.1101/gr.913403 · Cited by 211 · see citing works

Rapid evolution of expression and regulatory divergences after yeast gene duplication

Gu, X., Zhang, Z., & Huang, W. (2005) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0409186102 · Cited by 206 · see citing works

Evolution after gene duplication: models, mechanisms, sequences, systems, and organisms

Tellgren‐Roth, C., Rastogi, S., Arvestad, L., Dittmar, K., Light, S., Ekman, D. S., & Liberles, D. A. (2006) · Journal of Experimental Zoology Part B Molecular and Developmental Evolution · doi:10.1002/jez.b.21124 · Cited by 205 · see citing works

SL trans-splicing: easy come or easy go?

Hastings, K. E. M. (2005) · Trends in Genetics · doi:10.1016/j.tig.2005.02.005 · Cited by 194 · see citing works

An Update of DIVERGE Software for Functional Divergence Analysis of Protein Family

Gu, X., Zou, Y., Su, Z., Huang, W. Y., Zhou, Z. M., Arendsee, Z. W., & Zeng, Y. (2013) · Molecular Biology and Evolution · doi:10.1093/molbev/mst069 · Cited by 188 · see citing works

Whole-genome screening indicates a possible burst of formation of processed pseudogenes and Alu repeats by particular L1 subfamilies in ancestral primates

Ohshima, K., Hattori, M., Yada, T., Gojobori, T., Sakaki, Y., & Okada, N. (2003) · Genome biology · doi:10.1186/gb-2003-4-11-r74 · Cited by 184 · see citing works

Evolution of alternative splicing after gene duplicationPreprint

Su, Z., Wang, J., Yu, J., Huang, X., & Gu, X. (2005) · Genome Research · doi:10.1101/gr.4197006 · Cited by 183 · see citing works

Tracking the evolutionary history of polyploidy in Fragaria L. (strawberry): New insights from phylogenetic analyses of low-copy nuclear genes

Rousseau‐Gueutin, M., Gaston, A., Aïnouche, A., Aïnouche, M. L., Olbricht, K., Staudt, G., Richard, L., & Denoyes-Rothan, B. (2009) · Molecular Phylogenetics and Evolution · doi:10.1016/j.ympev.2008.12.024 · Cited by 176 · see citing works

Biological applications of the theory of birth-and-death processes

Novozhilov, A. S., Karev, G. P., & Koonin, E. V. (2006) · Briefings in Bioinformatics · doi:10.1093/bib/bbk006 · Cited by 170 · see citing works

New Evidence for Genome-Wide Duplications at the Origin of Vertebrates Using an Amphioxus Gene Set and Completed Animal GenomesPreprint

Panopoulou, G. D., Hennig, S., Groth, D., Krause, A., Poustka, A., Herwig, R., Vingron, M., & Lehrach, H. (2003) · Genome Research · doi:10.1101/gr.874803 · Cited by 167 · see citing works

Reconciliation with Non-Binary Species Trees

Vernot, B., Stolzer, M., Goldman, A., & Durand, D. (2008) · Journal of Computational Biology · doi:10.1089/cmb.2008.0092 · Cited by 162 · see citing works

Computational approaches to unveiling ancient genome duplications

de Peer, Y. V. (2004) · Nature Reviews Genetics · doi:10.1038/nrg1449 · Cited by 162 · see citing works

Gene family evolution in green plants with emphasis on the origination and evolution of A rabidopsis thaliana genes

Guo, Y. (2012) · The Plant Journal · doi:10.1111/tpj.12089 · Cited by 161 · see citing works

Molecular evolution meets the genomics revolution

Wolfe, K. H., & Li, W. (2003) · Nature Genetics · doi:10.1038/ng1088 · Cited by 153 · see citing works

The chordate amphioxus: an emerging model organism for developmental biology

Holland, L. Z., Laudet, V., & Schubert, M. (2004) · Cellular and Molecular Life Sciences · doi:10.1007/s00018-004-4075-2 · Cited by 148 · see citing works

Gene expression in spider appendages reveals reversal of exd/hth spatial specificity, altered leg gap gene dynamics, and suggests divergent distal morphogen signaling

Prpíc, N.-M., Janßen, R., Wigand, B., Klingler, M., & Damen, W. G. M. (2003) · Developmental Biology · doi:10.1016/j.ydbio.2003.08.002 · Cited by 138 · see citing works

On the origins of the adaptive immune system: novel insights from invertebrates and cold-blooded vertebrates

Kasahara, M., Suzuki, T., & Pasquier, L. D. (2003) · Trends in Immunology · doi:10.1016/j.it.2003.11.005 · Cited by 138 · see citing works

Comprehensive clarification of two paralogous interleukin 4/13 loci in teleost fish

Ohtani, M., Hayashi, N., Hashimoto, K., Nakanishi, T., & Dijkstra, J. M. (2008) · Immunogenetics · doi:10.1007/s00251-008-0299-x · Cited by 131 · see citing works

The Effect of Gene Conversion on the Divergence Between Duplicated Genes

Teshima, K. M., & Innan, H. (2004) · Genetics · doi:10.1534/genetics.166.3.1553 · Cited by 126 · see citing works

Accelerated gene evolution and subfunctionalization in the pseudotetraploid frog Xenopus laevis

Hellsten, U., Khokha, M. K., Grammer, T. C., Harland, R. M., Richardson, P., & Rokhsar, D. S. (2007) · BMC Biology · doi:10.1186/1741-7007-5-31 · Cited by 123 · see citing works

Statistical Framework for Phylogenomic Analysis of Gene Family Expression Profiles

Gu, X. (2004) · Genetics · doi:10.1534/genetics.167.1.531 · Cited by 122 · see citing works

Isochores and tissue-specificity

Vinogradov, A. E. (2003) · Nucleic Acids Research · doi:10.1093/nar/gkg699 · Cited by 111 · see citing works

Ral small GTPase signaling and oncogenesis: More than just 15minutes of fame

Gentry, L. R., Martin, T. D., Reiner, D. J., & Der, C. J. (2014) · Biochimica et Biophysica Acta (BBA) - Molecular Cell Research · doi:10.1016/j.bbamcr.2014.09.004 · Cited by 110 · see citing works

Modularity and reshuffling of Snail and Slug expression during vertebrate evolution

Locascio, A., Manzanares, M., Blanco, M. J., & Nieto, M. A. (2002) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.262525399 · Cited by 108 · see citing works

Inferring angiosperm phylogeny from EST data with widespread gene duplication

Sanderson, M. J., & McMahon, M. M. (2007) · BMC Evolutionary Biology · doi:10.1186/1471-2148-7-s1-s3 · Cited by 108 · see citing works

SCPP Gene Evolution and the Dental Mineralization Continuum

Kawasaki, K., & Weiss, K. M. (2008) · Journal of Dental Research · doi:10.1177/154405910808700608 · Cited by 107 · see citing works

Organismal complexity, protein complexity, and gene duplicability

Yang, J., Lusk, R. W., & Li, W. (2003) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.2536672100 · Cited by 106 · see citing works

Impact of gene gains, losses and duplication modes on the origin and diversification of vertebrates

Cañestro, C., Albalat, R., Irimia, M., & García‐Fernàndez, J. (2013) · Seminars in Cell and Developmental Biology · doi:10.1016/j.semcdb.2012.12.008 · Cited by 105 · see citing works

Evolution of duplicate genes versus genetic robustness against null mutations

Gu, X. (2003) · Trends in Genetics · doi:10.1016/s0168-9525(03)00139-2 · Cited by 104 · see citing works

An evolutionary history of the FGF superfamily

Popovici, C., Roubin, R., Coulier, F., & Birnbaum, D. (2005) · BioEssays · doi:10.1002/bies.20261 · Cited by 98 · see citing works

Ancient and recent polyploidy in angiosperms

Soltis, P. S. (2005) · New Phytologist · doi:10.1111/j.1469-8137.2005.01379.x · Cited by 97 · see citing works

The Origin and Evolution of Enamel Mineralization Genes

Sire, J., Davit‐Béal, T., Delgado, S., & Gu, X. (2007) · Cells Tissues Organs · doi:10.1159/000102679 · Cited by 96 · see citing works

Evolution of Transcription Networks — Lessons from Yeasts

Li, H., & Johnson, A. D. (2010) · Current Biology · doi:10.1016/j.cub.2010.06.056 · Cited by 95 · see citing works

Evolutionary Dynamics of the Interferon-Induced Transmembrane Gene Family in Vertebrates

Zhang, Z., Liu, J., Li, M., Yang, H., & Zhang, C. (2012) · PLoS ONE · doi:10.1371/journal.pone.0049265 · Cited by 92 · see citing works

Whole-genome duplications in South American desert rodents (Octodontidae)

Gallardo, M. H., Kausel, G., Jiménez, A. S. A., Bacquet, C. N., GONZÁLEZ, C., Figueroa, J. E., Köhler, N., & Ojeda, R. A. (2004) · Biological Journal of the Linnean Society · doi:10.1111/j.1095-8312.2004.00331.x · Cited by 90 · see citing works

Evolutionary Change of the Numbers of Homeobox Genes in Bilateral Animals

Nam, J., & Nei, M. (2005) · Molecular Biology and Evolution · doi:10.1093/molbev/msi229 · Cited by 85 · see citing works

Formation and Evolution of the Chordate Neurotrophin and Trk Receptor Genes

Hallböök, F., Wilson, K., Thorndyke, M. C., & Olinski, R. P. (2006) · Brain Behavior and Evolution · doi:10.1159/000094083 · Cited by 84 · see citing works

The Temporal Distribution of Gene Duplication Events in a Set of Highly Conserved Human Gene Families

Friedman, R., & Hughes, A. L. (2003) · Molecular Biology and Evolution · doi:10.1093/molbev/msg017 · Cited by 84 · see citing works

Loss of ancestral genes in the genomic evolution of Ciona intestinalis

Hughes, A. L., & Friedman, R. (2005) · Evolution & Development · doi:10.1111/j.1525-142x.2005.05022.x · Cited by 84 · see citing works

Origins, Lineage-Specific Expansions, and Multiple Losses of Tyrosine Kinases in Eukaryotes

Shiu, S., & Li, W. (2004) · Molecular Biology and Evolution · doi:10.1093/molbev/msh077 · Cited by 82 · see citing works

Elephant shark ( Callorhinchus milii ) provides insights into the evolution of Hox gene clusters in gnathostomes

Ravi, V., Lam, K., Tay, B.-H., Tay, A., Brenner, S., & Venkatesh, B. (2009) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0907914106 · Cited by 80 · see citing works

Bioinformatics software for biologists in the genomics era

Kumar, S., & Dudley, J. T. (2007) · Bioinformatics · doi:10.1093/bioinformatics/btm239 · Cited by 80 · see citing works

Genome-wide identification and gene expression pattern of ABC transporter gene family in Capsicum spp.

Ortíz, C. E., Dutta, S. K., Natarajan, P., Peña-García, Y., Abburi, V. L., Saminathan, T., Nimmakayala, P., & Reddy, U. K. (2019) · PLoS ONE · doi:10.1371/journal.pone.0215901 · Cited by 79 · see citing works

C-type lectin-like domains in Fugu rubripes

Zelensky, A. N., & Gready, J. E. (2004) · BMC Genomics · doi:10.1186/1471-2164-5-51 · Cited by 78 · see citing works

Gene Duplication and the Evolution of Vertebrate Skeletal Mineralization

Kawasaki, K., Buchanan, A. V., & Weiss, K. M. (2007) · Cells Tissues Organs · doi:10.1159/000102678 · Cited by 77 · see citing works

Sequence Similarity Network Reveals Common Ancestry of Multidomain Proteins

Song, N., Joseph, J. M., Davis, G. B., & Durand, D. (2008) · PLoS Computational Biology · doi:10.1371/journal.pcbi.1000063 · Cited by 76 · see citing works

Phylogenetic Dating and Characterization of Gene Duplications in Vertebrates: The Cartilaginous Fish Reference

Robinson‐Rechavi, M., Boussau, B., & Laudet, V. (2004) · Molecular Biology and Evolution · doi:10.1093/molbev/msh046 · Cited by 76 · see citing works

Tests for Gene Clustering

Durand, D., & Sankoff, D. (2003) · Journal of Computational Biology · doi:10.1089/10665270360688129 · Cited by 75 · see citing works

How much expression divergence after yeast gene duplication could be explained by regulatory motif evolution?

Zhang, Z., Gu, J., & Gu, X. (2004) · Trends in Genetics · doi:10.1016/j.tig.2004.07.006 · Cited by 74 · see citing works

Rates and patterns of gene duplication and loss in the human genome

Cotton, J. A., & Page, R. (2005) · Proceedings of the Royal Society B Biological Sciences · doi:10.1098/rspb.2004.2969 · Cited by 73 · see citing works

Conserved Synteny Between the Ciona Genome and Human Paralogons Identifies Large Duplication Events in the Molecular Evolution of the Insulin-Relaxin Gene Family

Olinski, R. P., Lundin, L., & Hallböök, F. (2005) · Molecular Biology and Evolution · doi:10.1093/molbev/msj002 · Cited by 73 · see citing works

The major histocompatibility complex origin

Danchin, É., Vitiello, V., Vienne, A., Richard, O., Gouret, P., McDermott, M., & Pontarotti, P. (2004) · Immunological Reviews · doi:10.1111/j.0105-2896.2004.00132.x · Cited by 70 · see citing works

Clathrin heavy and light chain isoforms originated by independent mechanisms of gene duplication during chordate evolution

Wakeham, D. E., Abi‐Rached, L., Towler, M. C., Wilbur, J. D., Parham, P., & Brodsky, F. M. (2005) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0502058102 · Cited by 67 · see citing works

Evolutionary history of the alpha2,8-sialyltransferase (ST8Sia) gene family: Tandem duplications in early deuterostomes explain most of the diversity found in the vertebrate ST8Sia genes

Harduin‐Lepers, A., Petit, D. P., Mollicone, R., Delannoy, P., Petit, J., & Oriol, R. (2008) · BMC Evolutionary Biology · doi:10.1186/1471-2148-8-258 · Cited by 65 · see citing works

Recent advances in understanding gonadotropin signaling

Casarini, L., & Simoni, M. (2021) · Faculty Reviews · doi:10.12703/r/10-41 · Cited by 63 · see citing works

What happens to genes in duplicated genomes

Kellogg, E. A. (2003) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0831050100 · Cited by 61 · see citing works

Genomic Sequence and Transcriptional Profile of the Boundary Between Pericentromeric Satellites and Genes on Human Chromosome Arm 10pPreprint

Guy, J., Hearn, T., Crosier, M., Mudge, J., Viggiano, L., Koczan, D., Thiesen, H.-J., Bailey, J. A., Horvath, J. E., Earthrowl, M. E., et al. (2003) · Genome Research · doi:10.1101/gr.644503 · Cited by 61 · see citing works

The evolution of neuroendocrine peptides

Conlon, J. M., & Larhammar, D. (2005) · General and Comparative Endocrinology · doi:10.1016/j.ygcen.2004.11.016 · Cited by 60 · see citing works

Macroevolution and the Genome

Gregory, T. R. (2005) · Elsevier eBooks · doi:10.1016/b978-012301463-4/50013-9 · Cited by 60 · see citing works

Characterization of SCaMC-3-like/slc25a41, a novel calcium-independent mitochondrial ATP-Mg/Pi carrier

Traba, J., Satrústegui, J., & del Arco, A. (2008) · Biochemical Journal · doi:10.1042/bj20081262 · Cited by 59 · see citing works

Origin and evolution of a placental-specific microRNA family in the human genome

Yuan, Z., Sun, X. S., Jiang, D., Ding, Y., Lu, Z., Gong, L., Liu, H., & Xie, J. (2010) · BMC Evolutionary Biology · doi:10.1186/1471-2148-10-346 · Cited by 58 · see citing works

Molecular Evolution and Structural Features of IRAK Family Members

Gosu, V., Basith, S., Durai, P., & Choi, S. (2012) · PLoS ONE · doi:10.1371/journal.pone.0049771 · Cited by 58 · see citing works

Genome Phylogenetic Analysis Based on Extended Gene Contents

Gu, X. (2004) · Molecular Biology and Evolution · doi:10.1093/molbev/msh138 · Cited by 58 · see citing works

Genome duplication strikes back

Spring, J. (2002) · Nature Genetics · doi:10.1038/ng0602-128 · Cited by 58 · see citing works

Evolutionary selection pressure and family relationships among connexin genes

Cruciani, V., & Mikalsen, S. (2007) · Biological Chemistry · doi:10.1515/bc.2007.028 · Cited by 57 · see citing works

Triploid Bridge and Role of Parthenogenesis in the Evolution of Autopolyploidy

Yamauchi, A., Hosokawa, A., Nagata, H., & Shimoda, M. (2004) · The American Naturalist · doi:10.1086/421356 · Cited by 56 · see citing works

Evolution and functional divergence of the anoctamin family of membrane proteins

Milenkovic, V. M., Brockmann, M. M., Stöhr, H., Weber, B. H. F., & Strauß, O. (2010) · BMC Evolutionary Biology · doi:10.1186/1471-2148-10-319 · Cited by 56 · see citing works

Consequences of loss of PINCH2 expression in mice

Stanchi, F., Bordoy, R., Kudlacek, O., Braun, A., Pfeifer, A., Moser, M., & Fässler, R. (2005) · Journal of Cell Science · doi:10.1242/jcs.02686 · Cited by 56 · see citing works

Evolutionary Biology of CD1

Dascher, C. C. (2007) · Springer eBooks · doi:10.1007/978-3-540-69511-0_1 · Cited by 54 · see citing works

Vertebrate evolution: doubling and shuffling with a full deck

Durand, D. (2002) · Trends in Genetics · doi:10.1016/s0168-9525(02)00008-2 · Cited by 54 · see citing works

The Pattern of Evolution of Smaller-Scale Gene Duplicates in Mammalian Genomes is More Consistent with Neo- than Subfunctionalisation

Hughes, T., & Liberles, D. A. (2007) · Journal of Molecular Evolution · doi:10.1007/s00239-007-9041-9 · Cited by 53 · see citing works

Evolutionary history of the human multigene families reveals widespread gene duplications throughout the history of animals

Pervaiz, N., Shakeel, N., Qasim, A., Raza, R. Z., Anwar, S., Rana, N., Xue, Y., Zhang, Z., Bào, Y., & Abbasi, A. A. (2019) · Greater South Information System · doi:10.60692/y95b7-d3x60

Two Rounds of Whole Genome Duplication in the Ancestral Vertebrate

Dehal, P., & Boore, J. L. (2005) · PLoS Biology · doi:10.1371/journal.pbio.0030314 · Cited by 1,526 · see citing works

Phylogenomic analysis reveals ancient segmental duplications in the human genome

Hafeez, M., Shabbir, M., Altaf, F., & Abbasi, A. A. (2015) · Molecular Phylogenetics and Evolution · doi:10.1016/j.ympev.2015.08.019 · Cited by 12 · see citing works

2R or not 2R: Testing hypotheses of genome duplication in early vertebrates

Hughes, A. L., & Friedman, R. (2003) · Springer eBooks · doi:10.1007/978-94-010-0263-9_9 · Cited by 64 · see citing works

Modeling the age distribution of gene duplications in vertebrate genome using mixture density

Wang, Z., Ding, G., Yu, Z., Liu, L., & Li, Y. (2008) · Genomics · doi:10.1016/j.ygeno.2008.10.008 · Cited by 3 · see citing works