ReviewMobile DNA2015
Transposable element detection from whole genome sequence data.
Review in Mobile DNA, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 93 papers, 1 of them a synthesis that pooled it.
What it found
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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.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
93 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Heritable L1 Retrotransposition Events During Development: Understanding Their Origins: Examination of heritable, endogenous L1 retrotransposition in mice opens up exciting new questions and research directions.BioEssays : news and reviews in molecular, cellular and developmental biology · 2018Pooled it
- Article
- Temperature and genetic background drive mobilization of diverse transposable elements in a global human fungal pathogen.PLoS genetics · 2026Article
- Retrotransposons and Diabetes Mellitus.Epigenomes · 2024Review
- Pan-cancer analysis reveals multifaceted roles of retrotransposon-fusion RNAs.bioRxiv : the preprint server for biology · 2023Article
- Review
- Reproducible evaluation of transposable element detectors with McClintock 2 guides accurate inference of Ty insertion patterns in yeast.Mobile DNA · 2023Article
- Oncogenic structural aberration landscape in gastric cancer genomes.Nature communications · 2023Article
- Variation in mutation, recombination, and transposition rates inGenome research · 2023Article
- Reproducible evaluation of transposable element detectors with McClintock 2 guides accurate inference of Ty insertion patterns in yeast.bioRxiv : the preprint server for biology · 2023Article
- Contribution of Retrotransposons to the Pathogenesis of Type 1 Diabetes and Challenges in Analysis Methods.International journal of molecular sciences · 2023Review
- Retrotransposon instability dominates the acquired mutation landscape of mouse induced pluripotent stem cells.Nature communications · 2022Article
- TEspeX: consensus-specific quantification of transposable element expression preventing biases from exonized fragments.Bioinformatics (Oxford, England) · 2022Article
- Comparative repeatome analysis reveals new evidence on genome evolution in wild diploid Arachis (Fabaceae) species.Planta · 2022Article
- A Map of 3' DNA Transduction Variants Mediated by Non-LTR Retroelements on 3202 Human Genomes.Biology · 2022Article
- Resistance to Arsenite and Arsenate inInternational journal of environmental research and public health · 2022Article
- TransposonUltimate: software for transposon classification, annotation and detection.Nucleic acids research · 2022Article
- Meta-Analysis Suggests That Intron Retention Can Affect Quantification of Transposable Elements from RNA-Seq Data.Biology · 2022Article
- Mechanisms of disease-associated SINE-VNTR-Alus.Experimental biology and medicine (Maywood, N.J.) · 2022Review
- Methodologies for theGenes · 2022Review
33 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
1 author.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The number of software tools available for detecting transposable element insertions from whole genome sequence data has been increasing steadily throughout the last ~5 years. Some of these methods have unique features suiting them for particular use cases, but in general they follow one or more of a common set of approaches. Here, detection and filtering approaches are reviewed in the light of transposable element biology and the current state of whole genome sequencing. We demonstrate that the current state-of-the-art methods still do not produce highly concordant results and provide resources to assist future development in transposable element detection methods.
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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.