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Items: 34


The Unreasonable Effectiveness of Convolutional Neural Networks in Population Genetic Inference.

Flagel L, Brandvain Y, Schrider DR.

Mol Biol Evol. 2019 Feb 1;36(2):220-238. doi: 10.1093/molbev/msy224.


Development and characterization of the first dsRNA-resistant insect population from western corn rootworm, Diabrotica virgifera virgifera LeConte.

Khajuria C, Ivashuta S, Wiggins E, Flagel L, Moar W, Pleau M, Miller K, Zhang Y, Ramaseshadri P, Jiang C, Hodge T, Jensen P, Chen M, Gowda A, McNulty B, Vazquez C, Bolognesi R, Haas J, Head G, Clark T.

PLoS One. 2018 May 14;13(5):e0197059. doi: 10.1371/journal.pone.0197059. eCollection 2018.


Mutational disruption of the ABCC2 gene in fall armyworm, Spodoptera frugiperda, confers resistance to the Cry1Fa and Cry1A.105 insecticidal proteins.

Flagel L, Lee YW, Wanjugi H, Swarup S, Brown A, Wang J, Kraft E, Greenplate J, Simmons J, Adams N, Wang Y, Martinelli S, Haas JA, Gowda A, Head G.

Sci Rep. 2018 May 8;8(1):7255. doi: 10.1038/s41598-018-25491-9.


Co-expression network analysis of duplicate genes in maize (Zea mays L.) reveals no subgenome bias.

Li L, Briskine R, Schaefer R, Schnable PS, Myers CL, Flagel LE, Springer NM, Muehlbauer GJ.

BMC Genomics. 2016 Nov 4;17(1):875.


Rapid molecular evolution across amniotes of the IIS/TOR network.

McGaugh SE, Bronikowski AM, Kuo CH, Reding DM, Addis EA, Flagel LE, Janzen FJ, Schwartz TS.

Proc Natl Acad Sci U S A. 2015 Jun 2;112(22):7055-60. doi: 10.1073/pnas.1419659112. Epub 2015 May 19.


Genetic markers for western corn rootworm resistance to Bt toxin.

Flagel LE, Swarup S, Chen M, Bauer C, Wanjugi H, Carroll M, Hill P, Tuscan M, Bansal R, Flannagan R, Clark TL, Michel AP, Head GP, Goldman BS.

G3 (Bethesda). 2015 Jan 7;5(3):399-405. doi: 10.1534/g3.114.016485.


Evidence of natural selection acting on a polymorphic hybrid incompatibility locus in Mimulus.

Sweigart AL, Flagel LE.

Genetics. 2015 Feb;199(2):543-54. doi: 10.1534/genetics.114.171819. Epub 2014 Nov 25.


Speciation and introgression between Mimulus nasutus and Mimulus guttatus.

Brandvain Y, Kenney AM, Flagel L, Coop G, Sweigart AL.

PLoS Genet. 2014 Jun 26;10(6):e1004410. doi: 10.1371/journal.pgen.1004410. eCollection 2014 Jun.


Western corn rootworm (Diabrotica virgifera virgifera) transcriptome assembly and genomic analysis of population structure.

Flagel LE, Bansal R, Kerstetter RA, Chen M, Carroll M, Flannagan R, Clark T, Goldman BS, Michel AP.

BMC Genomics. 2014 Mar 14;15:195. doi: 10.1186/1471-2164-15-195.


The standing pool of genomic structural variation in a natural population of Mimulus guttatus.

Flagel LE, Willis JH, Vision TJ.

Genome Biol Evol. 2014 Jan;6(1):53-64. doi: 10.1093/gbe/evt199.


Homoeolog expression bias and expression level dominance in allopolyploids.

Grover CE, Gallagher JP, Szadkowski EP, Yoo MJ, Flagel LE, Wendel JF.

New Phytol. 2012 Dec;196(4):966-71. doi: 10.1111/j.1469-8137.2012.04365.x. Epub 2012 Oct 4. No abstract available.


Duplicate gene evolution, homoeologous recombination, and transcriptome characterization in allopolyploid cotton.

Flagel LE, Wendel JF, Udall JA.

BMC Genomics. 2012 Jul 6;13:302. doi: 10.1186/1471-2164-13-302.


Parallel up-regulation of the profilin gene family following independent domestication of diploid and allopolyploid cotton (Gossypium).

Bao Y, Hu G, Flagel LE, Salmon A, Bezanilla M, Paterson AH, Wang Z, Wendel JF.

Proc Natl Acad Sci U S A. 2011 Dec 27;108(52):21152-7. doi: 10.1073/pnas.1115926109. Epub 2011 Dec 12.


Gene expression in developing fibres of Upland cotton (Gossypium hirsutum L.) was massively altered by domestication.

Rapp RA, Haigler CH, Flagel L, Hovav RH, Udall JA, Wendel JF.

BMC Biol. 2010 Nov 15;8:139. doi: 10.1186/1741-7007-8-139.


RNase T2 genes from rice and the evolution of secretory ribonucleases in plants.

MacIntosh GC, Hillwig MS, Meyer A, Flagel L.

Mol Genet Genomics. 2010 Apr;283(4):381-96. doi: 10.1007/s00438-010-0524-9. Epub 2010 Feb 25.


Evolutionary rate variation, genomic dominance and duplicate gene expression evolution during allotetraploid cotton speciation.

Flagel LE, Wendel JF.

New Phytol. 2010 Apr;186(1):184-93. doi: 10.1111/j.1469-8137.2009.03107.x. Epub 2009 Nov 19.


Homoeologous nonreciprocal recombination in polyploid cotton.

Salmon A, Flagel L, Ying B, Udall JA, Wendel JF.

New Phytol. 2010 Apr;186(1):123-34. doi: 10.1111/j.1469-8137.2009.03093.x. Epub 2009 Nov 19.


Parallel expression evolution of oxidative stress-related genes in fiber from wild and domesticated diploid and polyploid cotton (Gossypium).

Chaudhary B, Hovav R, Flagel L, Mittler R, Wendel JF.

BMC Genomics. 2009 Aug 17;10:378. doi: 10.1186/1471-2164-10-378.


Gene duplication and evolutionary novelty in plants.

Flagel LE, Wendel JF.

New Phytol. 2009 Aug;183(3):557-64. doi: 10.1111/j.1469-8137.2009.02923.x. Epub 2009 Jun 23. Review.


Reciprocal silencing, transcriptional bias and functional divergence of homeologs in polyploid cotton (gossypium).

Chaudhary B, Flagel L, Stupar RM, Udall JA, Verma N, Springer NM, Wendel JF.

Genetics. 2009 Jun;182(2):503-17. doi: 10.1534/genetics.109.102608. Epub 2009 Apr 10.


Coordinated and fine-scale control of homoeologous gene expression in allotetraploid cotton.

Flagel LE, Chen L, Chaudhary B, Wendel JF.

J Hered. 2009 Jul-Aug;100(4):487-90. doi: 10.1093/jhered/esp003. Epub 2009 Mar 5.


Evolutionary genetics of genome merger and doubling in plants.

Doyle JJ, Flagel LE, Paterson AH, Rapp RA, Soltis DE, Soltis PS, Wendel JF.

Annu Rev Genet. 2008;42:443-61. doi: 10.1146/annurev.genet.42.110807.091524. Review.


Parallel domestication, convergent evolution and duplicated gene recruitment in allopolyploid cotton.

Hovav R, Chaudhary B, Udall JA, Flagel L, Wendel JF.

Genetics. 2008 Jul;179(3):1725-33. doi: 10.1534/genetics.108.089656. Epub 2008 Jun 18.


Phylogenetic, morphological, and chemotaxonomic incongruence in the North American endemic genus Echinacea.

Flagel LE, Rapp RA, Grover CE, Widrlechner MP, Hawkins J, Grafenberg JL, Alvarez I, Chung GY, Wendel JF.

Am J Bot. 2008 Jun;95(6):756-65. doi: 10.3732/ajb.0800049.


Partitioned expression of duplicated genes during development and evolution of a single cell in a polyploid plant.

Hovav R, Udall JA, Chaudhary B, Rapp R, Flagel L, Wendel JF.

Proc Natl Acad Sci U S A. 2008 Apr 22;105(16):6191-5. doi: 10.1073/pnas.0711569105. Epub 2008 Apr 17.


Disinhibition combines with excitation to extend the operating range of the OFF visual pathway in daylight.

Manookin MB, Beaudoin DL, Ernst ZR, Flagel LJ, Demb JB.

J Neurosci. 2008 Apr 16;28(16):4136-50. doi: 10.1523/JNEUROSCI.4274-07.2008.


Duplicate gene expression in allopolyploid Gossypium reveals two temporally distinct phases of expression evolution.

Flagel L, Udall J, Nettleton D, Wendel J.

BMC Biol. 2008 Apr 16;6:16. doi: 10.1186/1741-7007-6-16.



Senchina DS, Flagel LE, Wendel JF, Kohut ML.

Econ Bot. 2006 Sep;60(3):205-211.


The evolution of spinnable cotton fiber entailed prolonged development and a novel metabolism.

Hovav R, Udall JA, Chaudhary B, Hovav E, Flagel L, Hu G, Wendel JF.

PLoS Genet. 2008 Feb;4(2):e25. doi: 10.1371/journal.pgen.0040025.


A majority of cotton genes are expressed in single-celled fiber.

Hovav R, Udall JA, Hovav E, Rapp R, Flagel L, Wendel JF.

Planta. 2008 Jan;227(2):319-29. Epub 2007 Sep 12.


Spotted cotton oligonucleotide microarrays for gene expression analysis.

Udall JA, Flagel LE, Cheung F, Woodward AW, Hovav R, Rapp RA, Swanson JM, Lee JJ, Gingle AR, Nettleton D, Town CD, Chen ZJ, Wendel JF.

BMC Genomics. 2007 Mar 27;8:81.


Effect of cystine-binding thiol drugs on urinary cystine capacity in patients with cystinuria.

Dolin DJ, Asplin JR, Flagel L, Grasso M, Goldfarb DS.

J Endourol. 2005 Apr;19(3):429-32.


Efficient soybean transformation using hygromycin B selection in the cotyledonary-node method.

Olhoft PM, Flagel LE, Donovan CM, Somers DA.

Planta. 2003 Mar;216(5):723-35. Epub 2002 Nov 1.


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