Repbase Update is a comprehensive database of repetitive elements from diverse eukaryotic organisms. Currently, it contains over 3600 annotated sequences representing different families and subfamilies of repeats, many of which are unreported anywhere else. Each sequence is accompanied by a short description and references to the original contributors. Repbase Update includes Repbase Reports, an electronic journal publishing newly discovered transposable elements, and the Transposon Pub, a web-based browser of selected chromosomal maps of transposable elements. Sequences from Repbase Update are used to screen and annotate repetitive elements using programs such as Censor and RepeatMasker. Repbase Update is available on the worldwide web at   

Bailey JA, Liu G, Eichler EE: An Alu transposition model for the origin and expansion of human segmental duplications. Am J Hum Genet 73:823–834 (2003).
Bao Z, Eddy SR: Automated de novo identification of repeat sequence families in sequenced genomes. Genome Res 12:1269-1276 (2002).
Bedell JA, Korf I, Gish W: MaskerAid: a performance enhancement to RepeatMasker. Bioinformatics 16:1040–1041 (2000).
Benson G: Tandem repeats finder: a program to analyze DNA sequences. Nucleic Acids Res 27:573–580 (1999).
Brosius J: RNAs from all categories generate retrosequences that may be exapted as novel genes or regulatory elements. Gene 238:115–134 (1999).
Castelo AT, Martins W, Gao GR: TROLL – tandem repeat occurrence locator. Bioinformatics 18:634–636 (2002).
Clamp M, Andrews D, Barker D, Bevan P, Cameron G, Chen Y, Clark L, Cox T, Cuff J, Curwen V, Down T, Durbin R, Eyras E, Gilbert J, Hammond M, Hubbard T, Kasprzyk A, Keefe D, Lehvaslaiho H, Iyer V, Melsopp C, Mongin E, Pettett R, Potter S, Rust A, Schmidt E, Searle S, Slater G, Smith J, Spooner W, Stabenau A, Stalker J, Stupka E, Ureta-Vidal A, Vastrik I, Birney E.: Ensembl 2002: accomodating comparative genomics. Nucleic Acids Res 31:38–42 (2003).
Feschotte C, Zhanng X, Wessler SR: Miniature inverted-repeat transposable elements and their relationship to established DNA transposons, in Craig NL, Craigie R, Gellert M, Lambowitz AM (eds): Mobile DNA II, pp 1147–1158 (ASM Press, Washington, D.C. 2002).
Hughes AL, Friedman R, Ekollu V, Rose JR: Non-random association of transposable elements with duplicated genomic blocks in Arabidopsis thaliana. Mol Phylogenet Evol 29:410–416 (2003).
Hurst GD, Werren JH: The role of selfish genetic elements in eukaryotic evolution. Nat Rev Genet 2:597–606 (2001).
Jurka J: Approaches to identification and analysis of interspersed repetitive DNA sequences, in Adams MD, Fields C, Venter JC (eds): Automated DNA Sequencing and Analysis, pp 294–298 (Academic Press, San Diego 1994).
Jurka J: Repeats in genomic DNA: mining and meaning. Curr Opin Struct Biol 8:333–337 (1998).
Jurka J: Repbase Update: a database and an electronic journal of repetitive elements. Trends Genet 16:418–420 (2000).
Jurka J, Milosavljevic A: Reconstruction and analysis of human Alu genes. J Mol Evol 32:105–121 (1991).
Jurka J, Walichiewicz J, Milosavljevic A: Prototypic sequences for human repetitive DNA. J Mol Evol 35:286–291 (1992).
Jurka J, Klonowski P, Dagman V, Pelton P: CENSOR – a program for identification and elimination of repetitive elements from DNA sequences. Comput Chem 20:119–121 (1996).
Jurka J, Kapitonov VV, Smit AF: Repetitive elements: detection, in Cooper DN (ed): Nature Encyclopedia of the Human Genome, pp 9–14 (Nature Publishing Group, London 2003).
Jurka J, Kohany O, Pavlicek A, Kapitonov VV, Jurka MV: Duplication, coclustering, and selection of human Alu retrotransposons. Proc Natl Acad Sci USA 101:1268–1272 (2004).
Kapitonov VV, Jurka J: Rolling-circle transposons in eukaryotes. Proc Natl Acad Sci USA 98:8714–8719 (2001).
Kapitonov VV, Jurka J: The esterase and PHD domains in CR1-like non-LTR retrotransposons. Mol Biol Evol 20:38–46 (2003).
Kapitonov VV, Pavlicek A, Jurka J: Anthology of human repetitive DNA, in Meyers RA (ed): Encyclopedia of Molecular Cell Biology and Molecular Medicine, volume 1, pp 251–305 (Wiley, Hoboken, NJ 2004).
Karolchik D, Baertsch R, Diekhans M, Furey TS, Hinrichs A, Lu YT, Roskin KM, Schwartz M, Sugnet CW, Thomas DJ, Weber RJ, Haussler D, Kent WJ: The UCSC Genome Browser Database. Nucleic Acids Res 23:51–54 (2003).
Kidwell MG, Lisch DR: Perspective: transposable elements, parasitic DNA, and genome evolution. Evolution Int J Org Evolution 55:1–24 (2001).
Lander ES, et al; International Human Genome Sequencing Consortium: Initial sequencing and analysis of the human genome. Nature 409:860–921 (2001).
Mager D, Medstrand P: Endogenous retroviruses, in Cooper DN (ed): Nature Encyclopedia of the Human Genome, pp 57–63 (Nature Publishing Group, London 2003).
McCarthy EM, McDonald JF: LTR_STRUC: a novel search and identification program for LTR retrotransposons. Bioinformatics 19:362–367 (2003).
Milosavljevic A, Jurka J: Discovering simple DNA sequences by the algorithmic significance method. Computer Appl Biosci 9:407–411 (1993).
Ohno S: Evolution by gene duplication (Springer Verlag, New York 1970).
Paces J, Pavlicek A, Zika R, Kapitonov VV, Jurka J, Paces V: HERVd: the Human Endogenous RetroViruses Database: update. Nucleic Acids Res 32:D50 (2004).
Rice P, Longden I, Bleasby A: EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet 16:276–277 (2000).
Robertson HM: Evolution of DNA transposons in eukaryotes, in Craig NL, Craigie R, Gellert M, Lambowitz AM (eds): Mobile DNA II, pp 1093–1110 (ASM Press, Washington, DC 2002).
Roth DB, Craig NL: VDJ Recombination: A transposase goes to work. Cell 94:411–414 (1998).
Sagot MF, Myers EW: Identifying satellites and periodic repetitions in biological sequences. J Comput Biol 5:539–553 (1998).
Smit AF: Interspersed repeats and other mementos of transposable elements in mammalian genomes. Curr Opin Genet Dev 9:657–663 (1999).
Volfovsky N, Haas BJ, Salzberg SL: A clustering method for repeat analysis in DNA sequences. Genome Biol 2:Research0027 (2001).
Wicker T, Matthews DE, Keller B: TREP: a database of Triticeae repetitive elements. Trends Plant Sci 7:561–562 (2002).
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