ArticleScientific reports2016
detectMITE: A novel approach to detect miniature inverted repeat transposable elements in genomes.
Article in Scientific reports, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 35 papers.
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Who cites it
35 citing papers in PubMed, 73 citations in OpenAlex.
- Introgressed Variation in TaMYB7-A1 Drives Graded Dormancy and Climate-Adaptive Pre-Harvest Sprouting Resistance in Wheat.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026Article
- Evolutionary Study of Transposable Elements: Structural Characterization and Phylogenomic Profiling in Plant Genomes.Journal of molecular evolution · 2026Review
- MITE Annotation and Landscape in 207 Plant Genomes Reveal Their Evolutionary Dynamics and Functional Roles.Molecular ecology resources · 2025Article
- Carbapenem-ResistantAntibiotics (Basel, Switzerland) · 2025Review
- Pervasive Conservation of Intron Number and Other Genetic Elements Revealed by a Chromosome-level Genome Assembly of the Hyper-polymorphic Nematode Caenorhabditis brenneri.Genome biology and evolution · 2025Article
- Unveiling host-parasite relationships through conserved MITEs in prokaryote and viral genomes.Nucleic acids research · 2024Article
- CircCNNs, a convolutional neural network framework to better understand the biogenesis of exonic circRNAs.Scientific reports · 2024Article
- Pervasive conservation of intron number and other genetic elements revealed by a chromosome-level genomic assembly of the hyper-polymorphic nematodebioRxiv : the preprint server for biology · 2024Article
- Review
- A chromosome-level assembly of the seed beetle Callosobruchus maculatus genome with annotation of its repetitive elements.G3 (Bethesda, Md.) · 2024Article
- Review
- Repetitive DNA sequence detection and its role in the human genome.Communications biology · 2023Review
- Genomic, functional and structural analyses elucidate evolutionary innovation within the sea anemone 8 toxin family.BMC biology · 2023Article
- TransposonUltimate: software for transposon classification, annotation and detection.Nucleic acids research · 2022Article
- Methodologies for theGenes · 2022Review
- Finding and Characterizing Repeats in Plant Genomes.Methods in molecular biology (Clifton, N.J.) · 2022Article
- Bioinformatics Approaches for Determining the Functional Impact of Repetitive Elements on Non-coding RNAs.Methods in molecular biology (Clifton, N.J.) · 2022Article
- Exploring the diversity of promoter and 5'UTR sequences in ancestral, historic and modern wheat.Plant biotechnology journal · 2021Article
- A sensitive repeat identification framework based on short and long reads.Nucleic acids research · 2021Article
- Recent amplification of microsatellite-associated miniature inverted-repeat transposable elements in the pineapple genome.BMC plant biology · 2021Article
Corrections and comments
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Authors and funding
3 authors at 2 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Miniature inverted repeat transposable elements (MITEs) are prevalent in eukaryotic genomes, including plants and animals. Classified as a type of non-autonomous DNA transposable elements, they play important roles in genome organization and evolution. Comprehensive and accurate genome-wide detection of MITEs in various eukaryotic genomes can improve our understanding of their origins, transposition processes, regulatory mechanisms, and biological relevance with regard to gene structures, expression, and regulation. In this paper, we present a new MATLAB-based program called detectMITE that employs a novel numeric calculation algorithm to replace conventional string matching algorithms in MITE detection, adopts the Lempel-Ziv complexity algorithm to filter out MITE candidates with low complexity, and utilizes the powerful clustering program CD-HIT to cluster similar MITEs into MITE families. Using the rice genome as test data, we found that detectMITE can more accurately, comprehensively, and efficiently detect MITEs on a genome-wide scale than other popular MITE detection tools. Through comparison with the potential MITEs annotated in Repbase, the widely used eukaryotic repeat database, detectMITE has been shown to find known and novel MITEs with a complete structure and full-length copies in the genome. detectMITE is an open source tool (https://sourceforge.net/projects/detectmite).
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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.