TEclass - A tool for automated classification of unknown eukaryotic transposable elements

Bioinformatics

Volumn 25, Issue 10, 2009, Pages 1329-1330

  Abrusán, György ^a,b   Grundmann, Norbert ^b   Demester, Luc ^a   Makalowski, Wojciech ^b  

^a UNIVERSITY OF LEUVEN   (Belgium)

^b UNIVERSITY OF MÜNSTER   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

ACCURACY; ARTICLE; AUTOMATION; CLASSIFICATION; COMPUTER PROGRAM; EUKARYOTE; FREQUENCY ANALYSIS; LONG INTERSPERSED REPEAT; LONG TERMINAL REPEAT; PRIORITY JOURNAL; SHORT INTERSPERSED REPEAT; SUPPORT VECTOR MACHINE; TAXONOMY; TRANSPOSON;

COMPUTATIONAL BIOLOGY; DNA TRANSPOSABLE ELEMENTS; EUKARYOTIC CELLS; REPETITIVE SEQUENCES, NUCLEIC ACID; SHORT INTERSPERSED NUCLEOTIDE ELEMENTS; SOFTWARE; TERMINAL REPEAT SEQUENCES;

EUKARYOTA;

EID: 65549101705     PISSN: 13674803     EISSN: 14602059     Source Type: Journal    
DOI: 10.1093/bioinformatics/btp084     Document Type: Article

References (6)

1. Andrieu,O. et al. (2004) Detection of transposable elements by their compositional bias. BMC Bioinformatics, 5, 94.
2. Bao,Z and Eddy,S.R. (2002) Automated de novo identification of repeat sequence families in sequenced genomes. Genome Res., 12, 1269-1276.
3. Chang,C.-C. and Lin,C.-J. (2001) LIBSVM: A library for support vector machines (version 2.86, 2008). Available at http://www.csie.ntu.edu.tw/ ~cjlin/libsvm.
4. Jurka,J. et al. (2005) Repbase update, a database of eukaryotic repetitive elements. Cytogenet. Genome Res., 110, 462-467.
5. McHardy,A.C. et al. (2007) Accurate phylogenetic classification of variable-length DNA fragments. Nat. Methods, 4, 63-72.
6. Price,A.L. et al. (2005) De novo identification of repeat families in large genomes. Bioinformatics, 21, i351-i358.