ModuleOrganizer: detecting modules in families of transposable elements
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Jacques Nicolas | Fariza Tahi | Sébastien Tempel | Christine Rousseau | C. Rousseau | J. Nicolas | F. Tahi | Sébastien Tempel
[1] J. H. Ward. Hierarchical Grouping to Optimize an Objective Function , 1963 .
[2] C. Feschotte,et al. DNA transposons and the evolution of eukaryotic genomes. , 2007, Annual review of genetics.
[3] Jacques Nicolas,et al. Suffix-tree analyser (STAN): looking for nucleotidic and peptidic patterns in chromosomes , 2005, Bioinform..
[4] B. Meyers,et al. The Functional Role of Pack-MULEs in Rice Inferred from Purifying Selection and Expression Profile[W] , 2009, The Plant Cell Online.
[5] Nicola Vitacolonna,et al. Structured motifs search , 2004, J. Comput. Biol..
[6] Marie-France Sagot,et al. RISOTTO: Fast Extraction of Motifs with Mismatches , 2006, LATIN.
[7] Esko Ukkonen,et al. On-line construction of suffix trees , 1995, Algorithmica.
[8] J. Collado-Vides,et al. Discovering regulatory elements in non-coding sequences by analysis of spaced dyads. , 2000, Nucleic acids research.
[9] S. Wessler,et al. LTR-retrotransposons and MITEs: important players in the evolution of plant genomes. , 1995, Current opinion in genetics & development.
[10] David A. Nix,et al. GATA: a graphic alignment tool for comparative sequence analysis , 2005, BMC Bioinformatics.
[11] Yongqiang Zhang,et al. SMOTIF: efficient structured pattern and profile motif search , 2006, Algorithms for Molecular Biology.
[12] C. Waddell,et al. FARE, a new family of foldback transposons in Arabidopsis. , 2000, Genetics.
[13] W. A. Silva,et al. The contribution of transposable elements to Bos taurus gene structure. , 2007, Gene.
[14] H. Dooner,et al. Give-and-take: interactions between DNA transposons and their host plant genomes. , 2007, Current opinion in genetics & development.
[15] Alan M. Lambowitz,et al. Mobile DNA III , 2002 .
[16] M. Batzer,et al. Birth of a chimeric primate gene by capture of the transposase gene from a mobile element. , 2006, Proceedings of the National Academy of Sciences of the United States of America.
[17] F. Bringaud,et al. Organization and evolution of two SIDER retroposon subfamilies and their impact on the Leishmania genome , 2009, BMC Genomics.
[18] J. Jurka,et al. Repbase Update, a database of eukaryotic repetitive elements , 2005, Cytogenetic and Genome Research.
[19] Y. Bigot,et al. Conservation of Palindromic and Mirror Motifs within Inverted Terminal Repeats of mariner-like Elements. , 2005, Journal of molecular biology.
[20] H. Quesneville,et al. Recurrent recruitment of the THAP DNA-binding domain and molecular domestication of the P-transposable element. , 2005, Molecular biology and evolution.
[21] G. Mehldau,et al. A system for pattern matching applications on biosequences , 1993, Comput. Appl. Biosci..
[22] Nematollaah Shiri,et al. Fast Structured Motif Search in DNA Sequences , 2008, BIRD.
[23] Lixing Yang,et al. Distribution, diversity, evolution, and survival of Helitrons in the maize genome , 2009, Proceedings of the National Academy of Sciences.
[24] Hatem Zayed,et al. The Sleeping Beauty transposable element: evolution, regulation and genetic applications. , 2004, Current issues in molecular biology.
[25] S. Potter,et al. DNA sequence of a foldback transposable element in Drosophila , 1982, Nature.
[26] J. E. Peters,et al. Tn7 elements: engendering diversity from chromosomes to episomes. , 2009, Plasmid.
[27] C. Feschotte,et al. Evidence that a family of miniature inverted-repeat transposable elements (MITEs) from the Arabidopsis thaliana genome has arisen from a pogo-like DNA transposon. , 2000, Molecular biology and evolution.
[28] John Riedl,et al. Generalized suffix trees for biological sequence data: applications and implementation , 1994, 1994 Proceedings of the Twenty-Seventh Hawaii International Conference on System Sciences.
[29] Inna Dubchak,et al. Multiple whole genome alignments and novel biomedical applications at the VISTA portal , 2007, Nucleic Acids Res..
[30] S. Eddy,et al. Automated de novo identification of repeat sequence families in sequenced genomes. , 2002, Genome research.
[31] J. Jurka,et al. Helitrons on a roll: eukaryotic rolling-circle transposons. , 2007, Trends in genetics : TIG.
[32] Pavel A. Pevzner,et al. De novo identification of repeat families in large genomes , 2005, ISMB.
[33] Yuzhuo Wang,et al. A Novel Protein Isoform of the Multicopy Human NAIP Gene Derives from Intragenic Alu SINE Promoters , 2009, PloS one.
[34] Guojun Yang,et al. Transposition of the rice miniature inverted repeat transposable element mPing in Arabidopsis thaliana , 2007, Proceedings of the National Academy of Sciences.
[35] Dominique Lavenier,et al. Domain organization within repeated DNA sequences: application to the study of a family of transposable elements , 2006, Bioinform..
[36] Marie-France Sagot,et al. Algorithms for Extracting Structured Motifs Using a Suffix Tree with an Application to Promoter and Regulatory Site Consensus Identification , 2000, J. Comput. Biol..
[37] Guojun Yang,et al. Tuned for Transposition: Molecular Determinants Underlying the Hyperactivity of a Stowaway MITE , 2009, Science.
[38] Dan Gusfield,et al. Algorithms on Strings, Trees, and Sequences - Computer Science and Computational Biology , 1997 .
[39] Kyoung-Hee Choi,et al. Applications of transposon-based gene delivery system in bacteria. , 2009, Journal of microbiology and biotechnology.
[40] M. G. Kidwell,et al. Transposable elements and host genome evolution. , 2000, Trends in ecology & evolution.
[41] Thomas L. Madden,et al. BLAST 2 Sequences, a new tool for comparing protein and nucleotide sequences. , 1999, FEMS microbiology letters.