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Items: 1 to 20 of 41

1.

Retroposon insertions and the chronology of avian sex chromosome evolution.

Suh A, Kriegs JO, Brosius J, Schmitz J.

Mol Biol Evol. 2011 Nov;28(11):2993-7. doi: 10.1093/molbev/msr147. Epub 2011 Jun 1.

PMID:
21633113
2.

Are transposable element insertions homoplasy free?: an examination using the avian tree of life.

Han KL, Braun EL, Kimball RT, Reddy S, Bowie RC, Braun MJ, Chojnowski JL, Hackett SJ, Harshman J, Huddleston CJ, Marks BD, Miglia KJ, Moore WS, Sheldon FH, Steadman DW, Witt CC, Yuri T.

Syst Biol. 2011 May;60(3):375-86. doi: 10.1093/sysbio/syq100. Epub 2011 Feb 8. No abstract available.

PMID:
21303823
3.

Evolution of modern birds revealed by mitogenomics: timing the radiation and origin of major orders.

Pacheco MA, Battistuzzi FU, Lentino M, Aguilar RF, Kumar S, Escalante AA.

Mol Biol Evol. 2011 Jun;28(6):1927-42. doi: 10.1093/molbev/msr014. Epub 2011 Jan 17.

4.

A novel web-based TinT application and the chronology of the Primate Alu retroposon activity.

Churakov G, Grundmann N, Kuritzin A, Brosius J, Makałowski W, Schmitz J.

BMC Evol Biol. 2010 Dec 2;10:376. doi: 10.1186/1471-2148-10-376.

5.

The UCSC Genome Browser database: update 2011.

Fujita PA, Rhead B, Zweig AS, Hinrichs AS, Karolchik D, Cline MS, Goldman M, Barber GP, Clawson H, Coelho A, Diekhans M, Dreszer TR, Giardine BM, Harte RA, Hillman-Jackson J, Hsu F, Kirkup V, Kuhn RM, Learned K, Li CH, Meyer LR, Pohl A, Raney BJ, Rosenbloom KR, Smith KE, Haussler D, Kent WJ.

Nucleic Acids Res. 2011 Jan;39(Database issue):D876-82. doi: 10.1093/nar/gkq963. Epub 2010 Oct 18.

6.

Tracking marsupial evolution using archaic genomic retroposon insertions.

Nilsson MA, Churakov G, Sommer M, Tran NV, Zemann A, Brosius J, Schmitz J.

PLoS Biol. 2010 Jul 27;8(7):e1000436. doi: 10.1371/journal.pbio.1000436.

7.

The genome of a songbird.

Warren WC, Clayton DF, Ellegren H, Arnold AP, Hillier LW, Künstner A, Searle S, White S, Vilella AJ, Fairley S, Heger A, Kong L, Ponting CP, Jarvis ED, Mello CV, Minx P, Lovell P, Velho TA, Ferris M, Balakrishnan CN, Sinha S, Blatti C, London SE, Li Y, Lin YC, George J, Sweedler J, Southey B, Gunaratne P, Watson M, Nam K, Backström N, Smeds L, Nabholz B, Itoh Y, Whitney O, Pfenning AR, Howard J, Völker M, Skinner BM, Griffin DK, Ye L, McLaren WM, Flicek P, Quesada V, Velasco G, Lopez-Otin C, Puente XS, Olender T, Lancet D, Smit AF, Hubley R, Konkel MK, Walker JA, Batzer MA, Gu W, Pollock DD, Chen L, Cheng Z, Eichler EE, Stapley J, Slate J, Ekblom R, Birkhead T, Burke T, Burt D, Scharff C, Adam I, Richard H, Sultan M, Soldatov A, Lehrach H, Edwards SV, Yang SP, Li X, Graves T, Fulton L, Nelson J, Chinwalla A, Hou S, Mardis ER, Wilson RK.

Nature. 2010 Apr 1;464(7289):757-62. doi: 10.1038/nature08819.

8.

Integrating genomes, brain and behavior in the study of songbirds.

Clayton DF, Balakrishnan CN, London SE.

Curr Biol. 2009 Sep 29;19(18):R865-73. doi: 10.1016/j.cub.2009.07.006. Review.

9.

Genome evolution in Reptilia: in silico chicken mapping of 12,000 BAC-end sequences from two reptiles and a basal bird.

Chapus C, Edwards SV.

BMC Genomics. 2009 Jul 14;10 Suppl 2:S8. doi: 10.1186/1471-2164-10-S2-S8.

10.

Retroposon analysis and recent geological data suggest near-simultaneous divergence of the three superorders of mammals.

Nishihara H, Maruyama S, Okada N.

Proc Natl Acad Sci U S A. 2009 Mar 31;106(13):5235-40. doi: 10.1073/pnas.0809297106. Epub 2009 Mar 13.

11.

Mosaic retroposon insertion patterns in placental mammals.

Churakov G, Kriegs JO, Baertsch R, Zemann A, Brosius J, Schmitz J.

Genome Res. 2009 May;19(5):868-75. doi: 10.1101/gr.090647.108. Epub 2009 Mar 4.

12.

Toward resolving deep neoaves phylogeny: data, signal enhancement, and priors.

Pratt RC, Gibb GC, Morgan-Richards M, Phillips MJ, Hendy MD, Penny D.

Mol Biol Evol. 2009 Feb;26(2):313-26. doi: 10.1093/molbev/msn248. Epub 2008 Nov 3.

PMID:
18981298
14.

A phylogenomic study of birds reveals their evolutionary history.

Hackett SJ, Kimball RT, Reddy S, Bowie RC, Braun EL, Braun MJ, Chojnowski JL, Cox WA, Han KL, Harshman J, Huddleston CJ, Marks BD, Miglia KJ, Moore WS, Sheldon FH, Steadman DW, Witt CC, Yuri T.

Science. 2008 Jun 27;320(5884):1763-8. doi: 10.1126/science.1157704.

15.

Hemiplasy: a new term in the lexicon of phylogenetics.

Avise JC, Robinson TJ.

Syst Biol. 2008 Jun;57(3):503-7. doi: 10.1080/10635150802164587. No abstract available.

PMID:
18570042
16.

Recent developments in the MAFFT multiple sequence alignment program.

Katoh K, Toh H.

Brief Bioinform. 2008 Jul;9(4):286-98. doi: 10.1093/bib/bbn013. Epub 2008 Mar 27.

PMID:
18372315
17.

Waves of genomic hitchhikers shed light on the evolution of gamebirds (Aves: Galliformes).

Kriegs JO, Matzke A, Churakov G, Kuritzin A, Mayr G, Brosius J, Schmitz J.

BMC Evol Biol. 2007 Oct 9;7:190.

18.

Genetic evidence supports song learning in the three-wattled bellbird Procnias tricarunculata (Cotingidae).

Saranathan V, Hamilton D, Powell GV, Kroodsma DE, Prum RO.

Mol Ecol. 2007 Sep;16(17):3689-702.

PMID:
17845441
19.

SINEs of a nearly perfect character.

Ray DA, Xing J, Salem AH, Batzer MA.

Syst Biol. 2006 Dec;55(6):928-35.

PMID:
17345674
20.

Phylogenomic investigation of CR1 LINE diversity in reptiles.

Shedlock AM.

Syst Biol. 2006 Dec;55(6):902-11.

PMID:
17345672

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