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Hadi Quesneville

Research Profile

Chemicals & Drugs

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Genes & Molecular Sequences

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Arabidopsis

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Publications

TOP 3
Matthias Zytnicki; YuFei Luo; Hadi Quesneville
Efficient comparison of sets of intervals with NC-lists.
Abdelkader Ainouche; Mireille Bétermier; Mick Chandler; Richard Cordaux; Gaël Cristofari; Jean-Marc Deragon; Pascale Lesage; Olivier Panaud; Hadi Quesneville; Chantal Vaury; Cristina Vieira; Clémentine Vitte
International Congress on Transposable Elements (ICTE) 2012 in Saint Malo and the sea of TE stories.
Philippe Leroy; Klaus Mayer; Hisataka Numa; Hajime Ohyanagi; Céline Pelegrin; Hadi Quesneville; Sébastien Reboux; Mathieu Reichstadt; Hiroaki Sakai; Michael Seidel; Tsuyoshi Tanaka; Sébastien Theil; Michael Alaux; Naoki Amano; Aurélien Bernard; Lorenzo Cerutti; Frédéric Choulet; Timothée Flutre; Franck Giacomoni; Emmanuelle Gicquello; Nicolas Guilhot; Takeshi Itoh; Fabrice Legeai; Catherine Feuillet
TriAnnot: A Versatile and High Performance Pipeline for the Automated Annotation of Plant Genomes.

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All Publications

2013: Matthias Zytnicki; YuFei Luo; Hadi Quesneville
Efficient comparison of sets of intervals with NC-lists.
Bioinformatics (Oxford, England) 2013;29(7):933-9.
2012: Abdelkader Ainouche; Mireille Bétermier; Mick Chandler; Richard Cordaux; Gaël Cristofari; Jean-Marc Deragon; Pascale Lesage; Olivier Panaud; Hadi Quesneville; Chantal Vaury; Cristina Vieira; Clémentine Vitte
International Congress on Transposable Elements (ICTE) 2012 in Saint Malo and the sea of TE stories.
Mobile DNA 2012;3(1):17.
2012: Philippe Leroy; Klaus Mayer; Hisataka Numa; Hajime Ohyanagi; Céline Pelegrin; Hadi Quesneville; Sébastien Reboux; Mathieu Reichstadt; Hiroaki Sakai; Michael Seidel; Tsuyoshi Tanaka; Sébastien Theil; Michael Alaux; Naoki Amano; Aurélien Bernard; Lorenzo Cerutti; Frédéric Choulet; Timothée Flutre; Franck Giacomoni; Emmanuelle Gicquello; Nicolas Guilhot; Takeshi Itoh; Fabrice Legeai; Catherine Feuillet
TriAnnot: A Versatile and High Performance Pipeline for the Automated Annotation of Plant Genomes.
Frontiers in plant science 2012;3():5.
2012: Emmanuelle Permal; Timothée Flutre; Hadi Quesneville
Roadmap for annotating transposable elements in eukaryote genomes.
Methods in molecular biology (Clifton, N.J.) 2012;859():53-68.
2011: Ben Field; Anna-Sophie Fiston-Lavier; Katrin Geisler; Ariane Kemen; Hadi Quesneville; Anne E Osbourn
Formation of plant metabolic gene clusters within dynamic chromosomal regions.
Proceedings of the National Academy of Sciences of the United States of America 2011;108(38):16116-21.
2011: Ikhlak Ahmed; Chris Bowler; Vincent Colot; Alexis Sarazin; Hadi Quesneville
Genome-wide evidence for local DNA methylation spreading from small RNA-targeted sequences in Arabidopsis.
Nucleic acids research 2011;39(16):6919-31.
2011: Matthias Zytnicki; Hadi Quesneville
S-MART, a software toolbox to aid RNA-Seq data analysis.
PloS one 2011;6(10):e25988.
2011: Slavica Stanojcic; François Cousserans; Philippe Fournier; Sylvie Gimenez; Emmanuelle Permal; Hadi Quesneville; Emmanuelle d'Alençon
Correlation of LNCR rasiRNAs expression with heterochromatin formation during development of the holocentric insect Spodoptera frugiperda.
PloS one 2011;6(9):e24746.
2011: Timothée Flutre; Elodie Duprat; Catherine Feuillet; Hadi Quesneville
Considering transposable element diversification in de novo annotation approaches.
PloS one 2011;6(1):e16526.
2008: Jean-Charles Cadoret; Françoise Meisch; Vahideh Hassan-Zadeh; Isabelle Luyten; Claire Guillet; Laurent Duret; Hadi Quesneville; Marie-Noëlle Prioleau
Genome-wide studies highlight indirect links between human replication origins and gene regulation.
Proceedings of the National Academy of Sciences of the United States of America 2008;105(41):15837-42.
2008: Nicolas Buisine; Hadi Quesneville; Vincent Colot
Improved detection and annotation of transposable elements in sequenced genomes using multiple reference sequence sets.
Genomics 2008;91(5):467-75.
2008: María Berdasco; Ruben Alcazar; María Victoria García-Ortiz; Esteban Ballestar; Agustín F Fernández; Teresa Roldán-Arjona; Antonio F Tiburcio; Teresa Altabella; Nicolas Buisine; Hadi Quesneville; Antoine Baudry; Loïc Lepiniec; Miguel Alaminos; Roberto Rodríguez; Alan Lloyd; Vincent Colot; Judith Bender; María Jesús Canal; Manel Esteller; Mario F Fraga
Promoter DNA hypermethylation and gene repression in undifferentiated Arabidopsis cells.
PloS one 2008;3(10):e3306.
2007: Casey M Bergman; Hadi Quesneville
Discovering and detecting transposable elements in genome sequences.
Briefings in bioinformatics 2007;8(6):382-92.
2007: Anna-Sophie Fiston-Lavier; Dominique Anxolabehere; Hadi Quesneville
A model of segmental duplication formation in Drosophila melanogaster.
Genome research 2007;17(10):1458-70.
2007: Clémentine Vitte; Olivier Panaud; Hadi Quesneville
LTR retrotransposons in rice (Oryza sativa, L.): recent burst amplifications followed by rapid DNA loss.
BMC genomics 2007;8():218.
2006: Casey M Bergman; Hadi Quesneville; Dominique Anxolabéhère; Michael Ashburner
Recurrent insertion and duplication generate networks of transposable element sequences in the Drosophila melanogaster genome.
Genome biology 2006;7(11):R112.
2006: Hadi Quesneville; Danielle Nouaud; Dominique Anxolabéhère
P elements and MITE relatives in the whole genome sequence of Anopheles gambiae.
BMC genomics 2006;7():214.
2006: Jan Drouaud; Christine Camilleri; Pierre-Yves Bourguignon; Aurélie Canaguier; Aurélie Bérard; Daniel Vezon; Sandra Giancola; Dominique Brunel; Vincent Colot; Bernard Prum; Hadi Quesneville; Christine Mézard
Variation in crossing-over rates across chromosome 4 of Arabidopsis thaliana reveals the presence of meiotic recombination "hot spots".
Genome research 2006;16(1):106-14.
2005: Karin Eiglmeier; Patrick Wincker; Laurence Cattolico; Véronique Anthouard; Inge Holm; Ralph Eckenberg; Hadi Quesneville; Olivier Jaillon; Frank H Collins; Jean Weissenbach; Paul T Brey; Charles W Roth
Comparative analysis of BAC and whole genome shotgun sequences from an Anopheles gambiae region related to Plasmodium encapsulation.
Insect biochemistry and molecular biology 2005;35(8):799-814.
2005: Hadi Quesneville; Casey M Bergman; Olivier Andrieu; Delphine Autard; Danielle Nouaud; Michael Ashburner; Dominique Anxolabehere
Combined evidence annotation of transposable elements in genome sequences.
PLoS computational biology 2005;1(2):166-75.
2005: Hadi Quesneville; Danielle Nouaud; Dominique Anxolabehere
Recurrent recruitment of the THAP DNA-binding domain and molecular domestication of the P-transposable element.
Molecular biology and evolution 2005;22(3):741-6.
2004: Olivier Andrieu; Anna-Sophie Fiston-Lavier; Dominique Anxolabéhère; Hadi Quesneville
Detection of transposable elements by their compositional bias.
BMC bioinformatics 2004;5():94.
2003: Marie-Hélène Dizier; Hadi Quesneville; C Besse-Schmittler; Michel Guilloud-Bataille; Hana Selinger-Leneman; Françoise Clerget-Darpoux; Florence Demenais
Indication of linkage and genetic heterogeneity for asthma and atopy on chromosomes 8p and 12q in 107 French EGEA families.
European journal of human genetics : EJHG 2003;11(8):590-6.
2003: Daphné Reiss; Hadi Quesneville; Danielle Nouaud; Olivier Andrieu; Dominique Anxolabehere
Hoppel, a P-like element without introns: a P-element ancestral structure or a retrotranscription derivative?
Molecular biology and evolution 2003;20(6):869-79.
2003: Danielle Nouaud; Hadi Quesneville; Dominique Anxolabéhère
Recurrent exon shuffling between distant P-element families.
Molecular biology and evolution 2003;20(2):190-9.
2003: Hadi Quesneville; Danielle Nouaud; Dominique Anxolabéhère
Detection of new transposable element families in Drosophila melanogaster and Anopheles gambiae genomes.
Journal of molecular evolution 2003;57 Suppl 1():S50-9.
2001: Hadi Quesneville; Dominique Anxolabéhère
Genetic algorithm-based model of evolutionary dynamics of class II transposable elements.
Journal of theoretical biology 2001;213(1):21-30.
2000: Marie-Hélène Dizier; Hadi Quesneville; Bernard Prum; Hana Selinger-Leneman; Françoise Clerget-Darpoux
The triangle test statistic (TTS): a test of genetic homogeneity using departure from the triangle constraints in IBD distribution among affected sib-pairs.
Annals of human genetics 2000;64(Pt 5):433-42.
2000: Catherine Bourgain; Emmanuelle Genin; Hadi Quesneville; Françoise Clerget-Darpoux
Search for multifactorial disease susceptibility genes in founder populations.
Annals of human genetics 2000;64(Pt 3):255-65.
1999: Hadi Quesneville; Marie-Hélène Dizier; Françoise Clerget-Darpoux
Departure from the triangle constraints in discordant sib pairs: a test for genetic heterogeneity.
Genetic epidemiology 1999;17 Suppl 1():S685-9.
1999: Emmanuelle Génin; F Guyon; Patricia Margaritte-Jeannin; Hadi Quesneville; Françoise Clerget-Darpoux
Detection and modeling of disease susceptibility locus effects: how much can be learned from contrast of populations?
Genetic epidemiology 1999;17 Suppl 1():S569-74.
1998: Hadi Quesneville; Dominique Anxolabéhère
Dynamics of transposable elements in metapopulations: a model of P element invasion in Drosophila.
Theoretical population biology 1998;54(2):175-93.
1998: Emmanuelle Génin; Hadi Quesneville; Françoise Clerget-Darpoux
On the probability of identity states in permutable populations: reply to Cannings.
American journal of human genetics 1998;62(3):726-7.
1997: Hadi Quesneville; Dominique Anxolabéhère
A simulation of P element horizontal transfer in Drosophila.
Genetica 1997;100(1-3):295-307.