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Items: 1 to 20 of 25

1.

A massively parallel strategy for STR marker development, capture, and genotyping.

Kistler L, Johnson SM, Irwin MT, Louis EE, Ratan A, Perry GH.

Nucleic Acids Res. 2017 Sep 6;45(15):e142. doi: 10.1093/nar/gkx574.

2.

Giraffe genome sequence reveals clues to its unique morphology and physiology.

Agaba M, Ishengoma E, Miller WC, McGrath BC, Hudson CN, Bedoya Reina OC, Ratan A, Burhans R, Chikhi R, Medvedev P, Praul CA, Wu-Cavener L, Wood B, Robertson H, Penfold L, Cavener DR.

Nat Commun. 2016 May 17;7:11519. doi: 10.1038/ncomms11519.

3.

Data characterizing the chloroplast genomes of extinct and endangered Hawaiian endemic mints (Lamiaceae) and their close relatives.

Welch AJ, Collins K, Ratan A, Drautz-Moses DI, Schuster SC, Lindqvist C.

Data Brief. 2016 Mar 14;7:900-22. doi: 10.1016/j.dib.2016.03.037. eCollection 2016 Jun.

4.

Large-scale mitogenomics enables insights into Schizophora (Diptera) radiation and population diversity.

Junqueira AC, Azeredo-Espin AM, Paulo DF, Marinho MA, Tomsho LP, Drautz-Moses DI, Purbojati RW, Ratan A, Schuster SC.

Sci Rep. 2016 Feb 25;6:21762. doi: 10.1038/srep21762.

5.

Genome-wide analysis of signatures of selection in populations of African honey bees (Apis mellifera) using new web-based tools.

Fuller ZL, Niño EL, Patch HM, Bedoya-Reina OC, Baumgarten T, Muli E, Mumoki F, Ratan A, McGraw J, Frazier M, Masiga D, Schuster S, Grozinger CM, Miller W.

BMC Genomics. 2015 Jul 10;16:518. doi: 10.1186/s12864-015-1712-0.

6.

Identification of indels in next-generation sequencing data.

Ratan A, Olson TL, Loughran TP Jr, Miller W.

BMC Bioinformatics. 2015 Feb 13;16:42. doi: 10.1186/s12859-015-0483-6.

7.

SAVINGS BY AND FOR THE POOR: A RESEARCH REVIEW AND AGENDA.

Karlan D, Ratan AL, Zinman J.

Rev Income Wealth. 2014 Mar;60(1):36-78.

8.

Khoisan hunter-gatherers have been the largest population throughout most of modern-human demographic history.

Kim HL, Ratan A, Perry GH, Montenegro A, Miller W, Schuster SC.

Nat Commun. 2014 Dec 4;5:5692. doi: 10.1038/ncomms6692.

9.

Galaxy tools to study genome diversity.

Bedoya-Reina OC, Ratan A, Burhans R, Kim HL, Giardine B, Riemer C, Li Q, Olson TL, Loughran TP Jr, Vonholdt BM, Perry GH, Schuster SC, Miller W.

Gigascience. 2013 Dec 30;2(1):17. doi: 10.1186/2047-217X-2-17.

10.

Aye-aye population genomic analyses highlight an important center of endemism in northern Madagascar.

Perry GH, Louis EE Jr, Ratan A, Bedoya-Reina OC, Burhans RC, Lei R, Johnson SE, Schuster SC, Miller W.

Proc Natl Acad Sci U S A. 2013 Apr 9;110(15):5823-8. doi: 10.1073/pnas.1211990110. Epub 2013 Mar 25.

11.

Comparison of sequencing platforms for single nucleotide variant calls in a human sample.

Ratan A, Miller W, Guillory J, Stinson J, Seshagiri S, Schuster SC.

PLoS One. 2013;8(2):e55089. doi: 10.1371/journal.pone.0055089. Epub 2013 Feb 6.

12.

Some phenotype association tools in Galaxy: looking for disease SNPs in a full genome.

Giardine BM, Riemer C, Burhans R, Ratan A, Miller W.

Curr Protoc Bioinformatics. 2012 Sep;Chapter 15:Unit15.2. doi: 10.1002/0471250953.bi1502s39.

13.

Sequencing and analysis of a South Asian-Indian personal genome.

Gupta R, Ratan A, Rajesh C, Chen R, Kim HL, Burhans R, Miller W, Santhosh S, Davuluri RV, Butte AJ, Schuster SC, Seshagiri S, Thomas G.

BMC Genomics. 2012 Aug 31;13:440. doi: 10.1186/1471-2164-13-440.

14.

Polar and brown bear genomes reveal ancient admixture and demographic footprints of past climate change.

Miller W, Schuster SC, Welch AJ, Ratan A, Bedoya-Reina OC, Zhao F, Kim HL, Burhans RC, Drautz DI, Wittekindt NE, Tomsho LP, Ibarra-Laclette E, Herrera-Estrella L, Peacock E, Farley S, Sage GK, Rode K, Obbard M, Montiel R, Bachmann L, Ingólfsson O, Aars J, Mailund T, Wiig O, Talbot SL, Lindqvist C.

Proc Natl Acad Sci U S A. 2012 Sep 4;109(36):E2382-90. doi: 10.1073/pnas.1210506109. Epub 2012 Jul 23.

15.

A genome sequence resource for the aye-aye (Daubentonia madagascariensis), a nocturnal lemur from Madagascar.

Perry GH, Reeves D, Melsted P, Ratan A, Miller W, Michelini K, Louis EE Jr, Pritchard JK, Mason CE, Gilad Y.

Genome Biol Evol. 2012;4(2):126-35. doi: 10.1093/gbe/evr132. Epub 2011 Dec 7.

16.

Genetic diversity and population structure of the endangered marsupial Sarcophilus harrisii (Tasmanian devil).

Miller W, Hayes VM, Ratan A, Petersen DC, Wittekindt NE, Miller J, Walenz B, Knight J, Qi J, Zhao F, Wang Q, Bedoya-Reina OC, Katiyar N, Tomsho LP, Kasson LM, Hardie RA, Woodbridge P, Tindall EA, Bertelsen MF, Dixon D, Pyecroft S, Helgen KM, Lesk AM, Pringle TH, Patterson N, Zhang Y, Kreiss A, Woods GM, Jones ME, Schuster SC.

Proc Natl Acad Sci U S A. 2011 Jul 26;108(30):12348-53. doi: 10.1073/pnas.1102838108. Epub 2011 Jun 27. Erratum in: Proc Natl Acad Sci U S A. 2012 Nov 6;109(45):18625.

17.

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.

18.

Calling SNPs without a reference sequence.

Ratan A, Zhang Y, Hayes VM, Schuster SC, Miller W.

BMC Bioinformatics. 2010 Mar 15;11:130. doi: 10.1186/1471-2105-11-130.

19.

Complete mitochondrial genome of a Pleistocene jawbone unveils the origin of polar bear.

Lindqvist C, Schuster SC, Sun Y, Talbot SL, Qi J, Ratan A, Tomsho LP, Kasson L, Zeyl E, Aars J, Miller W, Ingólfsson O, Bachmann L, Wiig O.

Proc Natl Acad Sci U S A. 2010 Mar 16;107(11):5053-7. doi: 10.1073/pnas.0914266107. Epub 2010 Mar 1. Erratum in: Proc Natl Acad Sci U S A. 2010 Mar 30;107(13):6118.

20.

Complete Khoisan and Bantu genomes from southern Africa.

Schuster SC, Miller W, Ratan A, Tomsho LP, Giardine B, Kasson LR, Harris RS, Petersen DC, Zhao F, Qi J, Alkan C, Kidd JM, Sun Y, Drautz DI, Bouffard P, Muzny DM, Reid JG, Nazareth LV, Wang Q, Burhans R, Riemer C, Wittekindt NE, Moorjani P, Tindall EA, Danko CG, Teo WS, Buboltz AM, Zhang Z, Ma Q, Oosthuysen A, Steenkamp AW, Oostuisen H, Venter P, Gajewski J, Zhang Y, Pugh BF, Makova KD, Nekrutenko A, Mardis ER, Patterson N, Pringle TH, Chiaromonte F, Mullikin JC, Eichler EE, Hardison RC, Gibbs RA, Harkins TT, Hayes VM.

Nature. 2010 Feb 18;463(7283):943-7. doi: 10.1038/nature08795.

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