ArticleBioinformatics advances2024
ULTRA-effective labeling of tandem repeats in genomic sequence.
Article in Bioinformatics advances, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 9 papers.
What it found
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Who cites it
9 citing papers in PubMed.
- Legume genome structures and histories inferred from Cercis canadensis and Chamaecrista fasciculata genomes.The Plant journal : for cell and molecular biology · 2026Article
- Noncanonical chromosomal-end-specific telomeric repeat arrays in naturally telomerase-negative yeasts.Nucleic acids research · 2026Article
- Finding low-complexity DNA sequences with longdust.Bioinformatics (Oxford, England) · 2026Article
- Chromosome-level haplotype-resolved genome assemblies and annotations of Apios americana and Apios priceana.Scientific data · 2026Article
- CiFi: accurate long-read chromosome conformation capture with low-input requirements.Nature communications · 2025Article
- Article
- NEAR: neural embeddings for amino acid relationships.Bioinformatics (Oxford, England) · 2025Article
- Pytrf: a python package for finding tandem repeats from genomic sequences.BMC bioinformatics · 2025Article
- NEAR: Neural Embeddings for Amino acid Relationships.bioRxiv : the preprint server for biology · 2025Article
Corrections and comments
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Authors and funding
2 authors.
Funding
Abstract
In the age of long read sequencing, genomics researchers now have access to accurate repetitive DNA sequence (including satellites) that, due to the limitations of short read-sequencing, could previously be observed only as unmappable fragments. Tools that annotate repetitive sequence are now more important than ever, so that we can better understand newly uncovered repetitive sequences, and also so that we can mitigate errors in bioinformatic software caused by those repetitive sequences. To that end, we introduce the 1.0 release of our tool for identifying and annotating locally repetitive sequence, Availability and implementation: ULTRA is released under an open source license, and is available for download at https://github.com/TravisWheelerLab/ULTRA.
Identifiers
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Registered trials
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.