Name
Abstract | ||
|---|---|---|
Summary: Repeated elements such as satellites and transposons are ubiquitous in eukaryotic genomes. De novo computational identification and classification of such elements is a challenging problem. Therefore, repeat annotation of sequenced genomes has historically largely relied on sequence similarity to hand-curated libraries of known repeat families. We present a new approach to de novo repeat annotation that exploits characteristic patterns of local alignments induced by certain classes of repeats. We describe PILER, a package of efficient search algorithms for identifying such patterns. Novel repeats found using PILER are reported for Homo sapiens, Arabidopsis thalania and Drosophila melanogaster. Availability: The PILER software is freely available at http://www.drive5.com/piler Contact: bob@drive5.com |
Year | DOI | Venue |
|---|---|---|
2005 | 10.1093/bioinformatics/bti1003 | ISMB (Supplement of Bioinformatics) |
Keywords | Field | DocType |
search algorithm,local alignment | Genome,Homo sapiens,Annotation,Biology,Transposable element,Genomics,Genomic library,Genome human,Bioinformatics,Drosophila melanogaster | Conference |
Volume | Issue | ISSN |
21 | 1 | 1367-4803 |
Citations | PageRank | References |
46 | 3.48 | 1 |
Authors | ||
2 | ||
Name | Order | Citations | PageRank |
|---|---|---|---|
| Robert C. Edgar | 1 | 611 | 53.19 |
| Eugene Myers | 2 | 3164 | 496.92 |