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Items: 16


T-lex3: an accurate tool to genotype and estimate population frequencies of transposable elements using the latest short-read whole genome sequencing data.

Bogaerts-Márquez M, Barrón MG, Fiston-Lavier AS, Vendrell-Mir P, Castanera R, Casacuberta JM, González J.

Bioinformatics. 2019 Oct 3. pii: btz727. doi: 10.1093/bioinformatics/btz727. [Epub ahead of print]


Cyprinid herpesvirus 3 Evolves In Vitro through an Assemblage of Haplotypes that Alternatively Become Dominant or Under-Represented.

Klafack S, Fiston-Lavier AS, Bergmann SM, Hammoumi S, Schröder L, Fuchs W, Lusiastuti A, Lee PY, Heredia SV; Master student consortium, Gosselin-Grenet AS, Avarre JC.

Viruses. 2019 Aug 15;11(8). pii: E754. doi: 10.3390/v11080754.


Stress response, behavior, and development are shaped by transposable element-induced mutations in Drosophila.

Rech GE, Bogaerts-Márquez M, Barrón MG, Merenciano M, Villanueva-Cañas JL, Horváth V, Fiston-Lavier AS, Luyten I, Venkataram S, Quesneville H, Petrov DA, González J.

PLoS Genet. 2019 Feb 12;15(2):e1007900. doi: 10.1371/journal.pgen.1007900. eCollection 2019 Feb.


The somatic piRNA pathway controls germline transposition over generations.

Barckmann B, El-Barouk M, Pélisson A, Mugat B, Li B, Franckhauser C, Fiston Lavier AS, Mirouze M, Fablet M, Chambeyron S.

Nucleic Acids Res. 2018 Oct 12;46(18):9524-9536. doi: 10.1093/nar/gky761.


The ace-1 Locus Is Amplified in All Resistant Anopheles gambiae Mosquitoes: Fitness Consequences of Homogeneous and Heterogeneous Duplications.

Assogba BS, Milesi P, Djogbénou LS, Berthomieu A, Makoundou P, Baba-Moussa LS, Fiston-Lavier AS, Belkhir K, Labbé P, Weill M.

PLoS Biol. 2016 Dec 5;14(12):e2000618. doi: 10.1371/journal.pbio.2000618. eCollection 2016 Dec.


A call for benchmarking transposable element annotation methods.

Hoen DR, Hickey G, Bourque G, Casacuberta J, Cordaux R, Feschotte C, Fiston-Lavier AS, Hua-Van A, Hubley R, Kapusta A, Lerat E, Maumus F, Pollock DD, Quesneville H, Smit A, Wheeler TJ, Bureau TE, Blanchette M.

Mob DNA. 2015 Aug 4;6:13. doi: 10.1186/s13100-015-0044-6. eCollection 2015.


T-lex2: genotyping, frequency estimation and re-annotation of transposable elements using single or pooled next-generation sequencing data.

Fiston-Lavier AS, Barrón MG, Petrov DA, González J.

Nucleic Acids Res. 2015 Feb 27;43(4):e22. doi: 10.1093/nar/gku1250. Epub 2014 Dec 15.


Population genomics of transposable elements in Drosophila.

Barrón MG, Fiston-Lavier AS, Petrov DA, González J.

Annu Rev Genet. 2014;48:561-81. doi: 10.1146/annurev-genet-120213-092359. Epub 2014 Oct 1. Review.


Illumina TruSeq synthetic long-reads empower de novo assembly and resolve complex, highly-repetitive transposable elements.

McCoy RC, Taylor RW, Blauwkamp TA, Kelley JL, Kertesz M, Pushkarev D, Petrov DA, Fiston-Lavier AS.

PLoS One. 2014 Sep 4;9(9):e106689. doi: 10.1371/journal.pone.0106689. eCollection 2014.


Compact genome of the Antarctic midge is likely an adaptation to an extreme environment.

Kelley JL, Peyton JT, Fiston-Lavier AS, Teets NM, Yee MC, Johnston JS, Bustamante CD, Lee RE, Denlinger DL.

Nat Commun. 2014 Aug 12;5:4611. doi: 10.1038/ncomms5611.


Formation of plant metabolic gene clusters within dynamic chromosomal regions.

Field B, Fiston-Lavier AS, Kemen A, Geisler K, Quesneville H, Osbourn AE.

Proc Natl Acad Sci U S A. 2011 Sep 20;108(38):16116-21. doi: 10.1073/pnas.1109273108. Epub 2011 Aug 29.


T-lex: a program for fast and accurate assessment of transposable element presence using next-generation sequencing data.

Fiston-Lavier AS, Carrigan M, Petrov DA, González J.

Nucleic Acids Res. 2011 Mar;39(6):e36. doi: 10.1093/nar/gkq1291. Epub 2010 Dec 21.


Population genomics of transposable elements in Drosophila melanogaster.

Petrov DA, Fiston-Lavier AS, Lipatov M, Lenkov K, González J.

Mol Biol Evol. 2011 May;28(5):1633-44. doi: 10.1093/molbev/msq337. Epub 2010 Dec 16.


Drosophila melanogaster recombination rate calculator.

Fiston-Lavier AS, Singh ND, Lipatov M, Petrov DA.

Gene. 2010 Sep 1;463(1-2):18-20. doi: 10.1016/j.gene.2010.04.015. Epub 2010 May 7.


A model of segmental duplication formation in Drosophila melanogaster.

Fiston-Lavier AS, Anxolabehere D, Quesneville H.

Genome Res. 2007 Oct;17(10):1458-70. Epub 2007 Aug 28.


Detection of transposable elements by their compositional bias.

Andrieu O, Fiston AS, Anxolabéhère D, Quesneville H.

BMC Bioinformatics. 2004 Jul 13;5:94.

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