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Items: 21

1.

Impact of index hopping and bias towards the reference allele on accuracy of genotype calls from low-coverage sequencing.

Ros-Freixedes R, Battagin M, Johnsson M, Gorjanc G, Mileham AJ, Rounsley SD, Hickey JM.

Genet Sel Evol. 2018 Dec 13;50(1):64. doi: 10.1186/s12711-018-0436-4.

2.

Advances in Sequencing and Resequencing in Crop Plants.

Marri PR, Ye L, Jia Y, Jiang K, Rounsley SD.

Adv Biochem Eng Biotechnol. 2018;164:11-35. doi: 10.1007/10_2017_46.

PMID:
29516115
3.

Genome Sequence of Ophidiomyces ophiodiicola, an Emerging Fungal Pathogen of Snakes.

Ohkura M, Fitak RR, Wisecaver JH, DeBlasio D, Niazi F, Egholm M, Rounsley SD, Kodira CD, Orbach MJ.

Genome Announc. 2017 Jul 27;5(30). pii: e00677-17. doi: 10.1128/genomeA.00677-17.

4.

Plantagora: modeling whole genome sequencing and assembly of plant genomes.

Barthelson R, McFarlin AJ, Rounsley SD, Young S.

PLoS One. 2011;6(12):e28436. doi: 10.1371/journal.pone.0028436. Epub 2011 Dec 12.

5.

Genome sequencing reveals widespread virulence gene exchange among human Neisseria species.

Marri PR, Paniscus M, Weyand NJ, Rendón MA, Calton CM, Hernández DR, Higashi DL, Sodergren E, Weinstock GM, Rounsley SD, So M.

PLoS One. 2010 Jul 28;5(7):e11835. doi: 10.1371/journal.pone.0011835.

6.

Population genomic sequencing of Coccidioides fungi reveals recent hybridization and transposon control.

Neafsey DE, Barker BM, Sharpton TJ, Stajich JE, Park DJ, Whiston E, Hung CY, McMahan C, White J, Sykes S, Heiman D, Young S, Zeng Q, Abouelleil A, Aftuck L, Bessette D, Brown A, FitzGerald M, Lui A, Macdonald JP, Priest M, Orbach MJ, Galgiani JN, Kirkland TN, Cole GT, Birren BW, Henn MR, Taylor JW, Rounsley SD.

Genome Res. 2010 Jul;20(7):938-46. doi: 10.1101/gr.103911.109. Epub 2010 Jun 1.

7.

Shotguns and SNPs: how fast and cheap sequencing is revolutionizing plant biology.

Rounsley SD, Last RL.

Plant J. 2010 Mar;61(6):922-7. doi: 10.1111/j.1365-313X.2009.04030.x. Review.

8.

Development of a rapid, cost-effective TaqMan Real-Time PCR Assay for identification and differentiation of Coccidioides immitis and Coccidioides posadasii.

Sheff KW, York ER, Driebe EM, Barker BM, Rounsley SD, Waddell VG, Beckstrom-Sternberg SM, Beckstrom-Sternberg JS, Keim PS, Engelthaler DM.

Med Mycol. 2010 May;48(3):466-9. doi: 10.3109/13693780903218990.

PMID:
20370360
9.

Comparative genomic analyses of the human fungal pathogens Coccidioides and their relatives.

Sharpton TJ, Stajich JE, Rounsley SD, Gardner MJ, Wortman JR, Jordar VS, Maiti R, Kodira CD, Neafsey DE, Zeng Q, Hung CY, McMahan C, Muszewska A, Grynberg M, Mandel MA, Kellner EM, Barker BM, Galgiani JN, Orbach MJ, Kirkland TN, Cole GT, Henn MR, Birren BW, Taylor JW.

Genome Res. 2009 Oct;19(10):1722-31. doi: 10.1101/gr.087551.108. Epub 2009 Aug 28.

10.

The genome of Nectria haematococca: contribution of supernumerary chromosomes to gene expansion.

Coleman JJ, Rounsley SD, Rodriguez-Carres M, Kuo A, Wasmann CC, Grimwood J, Schmutz J, Taga M, White GJ, Zhou S, Schwartz DC, Freitag M, Ma LJ, Danchin EG, Henrissat B, Coutinho PM, Nelson DR, Straney D, Napoli CA, Barker BM, Gribskov M, Rep M, Kroken S, Molnár I, Rensing C, Kennell JC, Zamora J, Farman ML, Selker EU, Salamov A, Shapiro H, Pangilinan J, Lindquist E, Lamers C, Grigoriev IV, Geiser DM, Covert SF, Temporini E, Vanetten HD.

PLoS Genet. 2009 Aug;5(8):e1000618. doi: 10.1371/journal.pgen.1000618. Epub 2009 Aug 28.

11.

Genomic and population analyses of the mating type loci in Coccidioides species reveal evidence for sexual reproduction and gene acquisition.

Mandel MA, Barker BM, Kroken S, Rounsley SD, Orbach MJ.

Eukaryot Cell. 2007 Jul;6(7):1189-99. Epub 2007 May 18.

12.

Arabidopsis map-based cloning in the post-genome era.

Jander G, Norris SR, Rounsley SD, Bush DF, Levin IM, Last RL.

Plant Physiol. 2002 Jun;129(2):440-50. Review.

13.

High throughput direct end sequencing of BAC clones.

Kelley JM, Field CE, Craven MB, Bocskai D, Kim UJ, Rounsley SD, Adams MD.

Nucleic Acids Res. 1999 Mar 15;27(6):1539-46.

14.

Genome maps 9. Arabidopsis thaliana. Wall chart.

Rhee SY, Weng S, Flanders D, Cherry JM, Dean C, Lister C, Anderson M, Koornneef M, Meinke DW, Nickle T, Smith K, Rounsley SD.

Science. 1998 Oct 23;282(5389):663-7. No abstract available.

PMID:
9841422
15.

Arabidopsis thaliana: a model plant for genome analysis.

Meinke DW, Cherry JM, Dean C, Rounsley SD, Koornneef M.

Science. 1998 Oct 23;282(5389):662, 679-82. Review.

PMID:
9784120
16.

Targeted disruption in Arabidopsis.

Kempin SA, Liljegren SJ, Block LM, Rounsley SD, Yanofsky MF, Lam E.

Nature. 1997 Oct 23;389(6653):802-3. No abstract available.

PMID:
9349810
17.

The construction of Arabidopsis expressed sequence tag assemblies. A new resource to facilitate gene identification.

Rounsley SD, Glodek A, Sutton G, Adams MD, Somerville CR, Venter JC, Kerlavage AR.

Plant Physiol. 1996 Nov;112(3):1177-83.

18.

Diverse roles for MADS box genes in Arabidopsis development.

Rounsley SD, Ditta GS, Yanofsky MF.

Plant Cell. 1995 Aug;7(8):1259-69.

19.
20.

Molecular evolution of flower development: diversification of the plant MADS-box regulatory gene family.

Purugganan MD, Rounsley SD, Schmidt RJ, Yanofsky MF.

Genetics. 1995 May;140(1):345-56.

21.

Isolation of the tomato AGAMOUS gene TAG1 and analysis of its homeotic role in transgenic plants.

Pnueli L, Hareven D, Rounsley SD, Yanofsky MF, Lifschitz E.

Plant Cell. 1994 Feb;6(2):163-73.

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