ArticleGenome research2002
Automated de novo identification of repeat sequence families in sequenced genomes.
Article in Genome research, 2002. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 605 papers.
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Who cites it
605 citing papers in PubMed.
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- TE_Bench: a foundational benchmarking workflow for transposable element annotation pipelines.Mobile DNA · 2026Article
- Chromosome-scale genome assembly and annotation of Jonah's icefish Neopagetopsis ionah.Scientific data · 2026Article
- A k-mer-based genome-wide association study approach empowering gene mining in polyploids.Nature genetics · 2026Article
- Haplotype-resolved T2T genome and population resequencing provide insights into the domestication and mogroside biosynthesis ofHorticulture research · 2026Article
- De novo Genome Assembly, Annotation, and Comparative Analysis of the Lined Sole Achirus lineatus as a Resource for Evolutionary and Environmental Genomics.Marine biotechnology (New York, N.Y.) · 2026Article
- Distinct genomic architectures but the same gene underlie the convergent evolution of a plant supergene.Science advances · 2026Article
- Chromosome-level genome assembly of the small-sized Taihang donkey (Equus asinus).Scientific data · 2026Article
- Evolutionary Study of Transposable Elements: Structural Characterization and Phylogenomic Profiling in Plant Genomes.Journal of molecular evolution · 2026Review
- Chromosome-level genome assembly and annotation of potato grouper (Epinephelus tukula).Scientific data · 2026Article
- Telomere-to-Telomere, Haplotype-Resolved Chromosome-Level Genome Assembly and Annotation of Taiwan Hard Clam (Meretrix taiwanica).Scientific data · 2026Article
- A chromosome-level whole genome of Red mahseer (Tor sinensis).Scientific data · 2026Article
- Reference genome assemblies for the North American bumble bees Bombus flavifrons and Bombus fervidus, two phenotypically polymorphic species from distinct phylogenetic lineages.G3 (Bethesda, Md.) · 2026Article
- Chromosome-level genome assembly of a citrus and tea insect pest, Aphis aurantii.Scientific data · 2026Article
- The first chromosomal level genome assembly and annotation of Pareuchiloglanis anteanalis.Scientific data · 2026Article
545 more citing papers are in PubMed but not listed here.
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2 authors.
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No grant is acknowledged in the PubMed record.
Abstract
Repetitive sequences make up a major part of eukaryotic genomes. We have developed an approach for the de novo identification and classification of repeat sequence families that is based on extensions to the usual approach of single linkage clustering of local pairwise alignments between genomic sequences. Our extensions use multiple alignment information to define the boundaries of individual copies of the repeats and to distinguish homologous but distinct repeat element families. When tested on the human genome, our approach was able to properly identify and group known transposable elements. The program, should be useful for first-pass automatic classification of repeats in newly sequenced genomes.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.