ArticleMolecular ecology resources2021
RepeatProfiler: A pipeline for visualization and comparative analysis of repetitive DNA profiles.
Article in Molecular ecology resources, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 33 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
33 citing papers in PubMed, 42 citations in OpenAlex.
- Article
- Comparative genomic analysis and epigenetic profiling of the Drosophila melanogaster B chromosome.Genetics · 2026Article
- Satellite DNA evolution in two holocentric species of Edessa true bugs (Hemiptera: Pentatomidae) with unusually high heterochromatin abundance.Chromosome research : an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology · 2026Article
- Satellite DNA dynamics across phylogenetic scales in ground beetles and other insects.bioRxiv : the preprint server for biology · 2026Article
- The extraordinary satellitome diversity of freshwater crayfish: a driver of genome evolution.Mobile DNA · 2026Article
- REAPER: a project-centric workflow layer for comparative repeatome analysis.Frontiers in plant science · 2026Article
- Expansion of satellite DNAs derived from transposable elements in beetles with reduced diploid numbers.Heredity · 2025Article
- New Insights into the Sex Chromosome Evolution of the Common Barker Frog Species Complex (Anura, Leptodactylidae) Inferred from Its Satellite DNA Content.Biomolecules · 2025Article
- Genome Assembly, Polishing, and Analysis of the Chytrid Batrachochytrium salamandrivorans.Methods in molecular biology (Clifton, N.J.) · 2025Article
- Satellitome Analysis ofInternational journal of molecular sciences · 2024Article
- Article
- Dominance of transposable element-related satDNAs results in great complexity of "satDNA library" and invokes the extension towards "repetitive DNA library".Marine life science & technology · 2024Article
- Article
- Horizontal transfer and the widespread presence of Galileo transposons in Drosophilidae (Insecta: Diptera).Genetics and molecular biology · 2024Article
- Analyses of 600+ insect genomes reveal repetitive element dynamics and highlight biodiversity-scale repeat annotation challenges.Genome research · 2023Article
- The nature and genomic landscape of repetitive DNA classes in Chrysanthemum nankingense shows recent genomic changes.Annals of botany · 2023Article
- Making the Genome Huge: The Case ofGenes · 2023Article
- Epigenetic Stress and Long-Read cDNA Sequencing of Sunflower (Plants (Basel, Switzerland) · 2022Article
- Transposon control as a checkpoint for tissue regeneration.Development (Cambridge, England) · 2022Article
- Transposable element expansion and low-level piRNA silencing in grasshoppers may cause genome gigantism.BMC biology · 2022Article
Corrections and comments
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Authors and funding
4 authors at 1 institution in 1 country.
Funding
Abstract
Study of repetitive DNA elements in model organisms highlights the role of repetitive elements (REs) in many processes that drive genome evolution and phenotypic change. Because REs are much more dynamic than single-copy DNA, repetitive sequences can reveal signals of evolutionary history over short time scales that may not be evident in sequences from slower-evolving genomic regions. Many tools for studying REs are directed toward organisms with existing genomic resources, including genome assemblies and repeat libraries. However, signals in repeat variation may prove especially valuable in disentangling evolutionary histories in diverse non-model groups, for which genomic resources are limited. Here, we introduce RepeatProfiler, a tool for generating, visualizing, and comparing repetitive element DNA profiles from low-coverage, short-read sequence data. RepeatProfiler automates the generation and visualization of RE coverage depth profiles (RE profiles) and allows for statistical comparison of profile shape across samples. In addition, RepeatProfiler facilitates comparison of profiles by extracting signal from sequence variants across profiles which can then be analysed as molecular morphological characters using phylogenetic analysis. We validate RepeatProfiler with data sets from ground beetles (Bembidion), flies (Drosophila), and tomatoes (Solanum). We highlight the potential of RE profiles as a high-resolution data source for studies in species delimitation, comparative genomics, and repeat biology.
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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.