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Items: 1 to 20 of 97

1.

A burst of segmental duplications in the genome of the African great ape ancestor.

Marques-Bonet T, Kidd JM, Ventura M, Graves TA, Cheng Z, Hillier LW, Jiang Z, Baker C, Malfavon-Borja R, Fulton LA, Alkan C, Aksay G, Girirajan S, Siswara P, Chen L, Cardone MF, Navarro A, Mardis ER, Wilson RK, Eichler EE.

Nature. 2009 Feb 12;457(7231):877-81. doi: 10.1038/nature07744.

2.

Evolution and diversity of copy number variation in the great ape lineage.

Sudmant PH, Huddleston J, Catacchio CR, Malig M, Hillier LW, Baker C, Mohajeri K, Kondova I, Bontrop RE, Persengiev S, Antonacci F, Ventura M, Prado-Martinez J; Great Ape Genome Project, Marques-Bonet T, Eichler EE.

Genome Res. 2013 Sep;23(9):1373-82. doi: 10.1101/gr.158543.113. Epub 2013 Jul 3.

3.

Evolutionary analysis of the highly dynamic CHEK2 duplicon in anthropoids.

Münch C, Kirsch S, Fernandes AM, Schempp W.

BMC Evol Biol. 2008 Oct 2;8:269. doi: 10.1186/1471-2148-8-269.

4.

Comparative and demographic analysis of orang-utan genomes.

Locke DP, Hillier LW, Warren WC, Worley KC, Nazareth LV, Muzny DM, Yang SP, Wang Z, Chinwalla AT, Minx P, Mitreva M, Cook L, Delehaunty KD, Fronick C, Schmidt H, Fulton LA, Fulton RS, Nelson JO, Magrini V, Pohl C, Graves TA, Markovic C, Cree A, Dinh HH, Hume J, Kovar CL, Fowler GR, Lunter G, Meader S, Heger A, Ponting CP, Marques-Bonet T, Alkan C, Chen L, Cheng Z, Kidd JM, Eichler EE, White S, Searle S, Vilella AJ, Chen Y, Flicek P, Ma J, Raney B, Suh B, Burhans R, Herrero J, Haussler D, Faria R, Fernando O, Darré F, Farré D, Gazave E, Oliva M, Navarro A, Roberto R, Capozzi O, Archidiacono N, Della Valle G, Purgato S, Rocchi M, Konkel MK, Walker JA, Ullmer B, Batzer MA, Smit AF, Hubley R, Casola C, Schrider DR, Hahn MW, Quesada V, Puente XS, Ordoñez GR, López-Otín C, Vinar T, Brejova B, Ratan A, Harris RS, Miller W, Kosiol C, Lawson HA, Taliwal V, Martins AL, Siepel A, Roychoudhury A, Ma X, Degenhardt J, Bustamante CD, Gutenkunst RN, Mailund T, Dutheil JY, Hobolth A, Schierup MH, Ryder OA, Yoshinaga Y, de Jong PJ, Weinstock GM, Rogers J, Mardis ER, Gibbs RA, Wilson RK.

Nature. 2011 Jan 27;469(7331):529-33. doi: 10.1038/nature09687.

5.

A genome-wide comparison of recent chimpanzee and human segmental duplications.

Cheng Z, Ventura M, She X, Khaitovich P, Graves T, Osoegawa K, Church D, DeJong P, Wilson RK, Pääbo S, Rocchi M, Eichler EE.

Nature. 2005 Sep 1;437(7055):88-93.

PMID:
16136132
6.

Punctuated duplication seeding events during the evolution of human chromosome 2p11.

Horvath JE, Gulden CL, Vallente RU, Eichler MY, Ventura M, McPherson JD, Graves TA, Wilson RK, Schwartz S, Rocchi M, Eichler EE.

Genome Res. 2005 Jul;15(7):914-27. Epub 2005 Jun 17.

7.

The evolution of African great ape subtelomeric heterochromatin and the fusion of human chromosome 2.

Ventura M, Catacchio CR, Sajjadian S, Vives L, Sudmant PH, Marques-Bonet T, Graves TA, Wilson RK, Eichler EE.

Genome Res. 2012 Jun;22(6):1036-49. doi: 10.1101/gr.136556.111. Epub 2012 Mar 14. Erratum in: Genome Res. 2017 Sep;27(9):1621.1.

8.

Hominoid chromosomal rearrangements on 17q map to complex regions of segmental duplication.

Cardone MF, Jiang Z, D'Addabbo P, Archidiacono N, Rocchi M, Eichler EE, Ventura M.

Genome Biol. 2008;9(2):R28. doi: 10.1186/gb-2008-9-2-r28. Epub 2008 Feb 7.

9.

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

Jiang Z, Tang H, Ventura M, Cardone MF, Marques-Bonet T, She X, Pevzner PA, Eichler EE.

Nat Genet. 2007 Nov;39(11):1361-8. Epub 2007 Oct 7.

PMID:
17922013
10.

Evolutionary dynamics of segmental duplications from human Y-chromosomal euchromatin/heterochromatin transition regions.

Kirsch S, Münch C, Jiang Z, Cheng Z, Chen L, Batz C, Eichler EE, Schempp W.

Genome Res. 2008 Jul;18(7):1030-42. doi: 10.1101/gr.076711.108. Epub 2008 Apr 29.

11.

Divergent origins and concerted expansion of two segmental duplications on chromosome 16.

Eichler EE, Johnson ME, Alkan C, Tuzun E, Sahinalp C, Misceo D, Archidiacono N, Rocchi M.

J Hered. 2001 Nov-Dec;92(6):462-8.

PMID:
11948212
12.

Gorilla genome structural variation reveals evolutionary parallelisms with chimpanzee.

Ventura M, Catacchio CR, Alkan C, Marques-Bonet T, Sajjadian S, Graves TA, Hormozdiari F, Navarro A, Malig M, Baker C, Lee C, Turner EH, Chen L, Kidd JM, Archidiacono N, Shendure J, Wilson RK, Eichler EE.

Genome Res. 2011 Oct;21(10):1640-9. doi: 10.1101/gr.124461.111. Epub 2011 Jun 17.

13.

Copy number variation analysis in the great apes reveals species-specific patterns of structural variation.

Gazave E, Darré F, Morcillo-Suarez C, Petit-Marty N, Carreño A, Marigorta UM, Ryder OA, Blancher A, Rocchi M, Bosch E, Baker C, Marquès-Bonet T, Eichler EE, Navarro A.

Genome Res. 2011 Oct;21(10):1626-39. doi: 10.1101/gr.117242.110. Epub 2011 Aug 8.

14.

A preliminary comparative analysis of primate segmental duplications shows elevated substitution rates and a great-ape expansion of intrachromosomal duplications.

She X, Liu G, Ventura M, Zhao S, Misceo D, Roberto R, Cardone MF, Rocchi M; NISC Comparative Sequencing Program, Green ED, Archidiacano N, Eichler EE.

Genome Res. 2006 May;16(5):576-83. Epub 2006 Apr 10.

15.

Segmental duplications in euchromatic regions of human chromosome 5: a source of evolutionary instability and transcriptional innovation.

Courseaux A, Richard F, Grosgeorge J, Ortola C, Viale A, Turc-Carel C, Dutrillaux B, Gaudray P, Nahon JL.

Genome Res. 2003 Mar;13(3):369-81.

16.

A Genome-Wide Landscape of Retrocopies in Primate Genomes.

Navarro FC, Galante PA.

Genome Biol Evol. 2015 Jul 29;7(8):2265-75. doi: 10.1093/gbe/evv142.

17.

Evolution of the DAZ gene and the AZFc region on primate Y chromosomes.

Yu YH, Lin YW, Yu JF, Schempp W, Yen PH.

BMC Evol Biol. 2008 Mar 26;8:96. doi: 10.1186/1471-2148-8-96.

18.

Evolution of beta satellite DNA sequences: evidence for duplication-mediated repeat amplification and spreading.

Cardone MF, Ballarati L, Ventura M, Rocchi M, Marozzi A, Ginelli E, Meneveri R.

Mol Biol Evol. 2004 Sep;21(9):1792-9. Epub 2004 Jun 16.

PMID:
15201396
19.

Lineage-specific gene duplication and loss in human and great ape evolution.

Fortna A, Kim Y, MacLaren E, Marshall K, Hahn G, Meltesen L, Brenton M, Hink R, Burgers S, Hernandez-Boussard T, Karimpour-Fard A, Glueck D, McGavran L, Berry R, Pollack J, Sikela JM.

PLoS Biol. 2004 Jul;2(7):E207. Epub 2004 Jul 13.

20.

Chromosomal evolution of the PKD1 gene family in primates.

Kirsch S, Pasantes J, Wolf A, Bogdanova N, Münch C, Markoff A, Pennekamp P, Krawczak M, Dworniczak B, Schempp W.

BMC Evol Biol. 2008 Sep 26;8:263. doi: 10.1186/1471-2148-8-263. Erratum in: BMC Evol Biol. 2009;9:14.. Markoff; Arseni [added].

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