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The good, the bad and the ugly of transposable elements annotation tools
- Source :
- Genetics and Molecular Biology, Vol 46, Iss 3 suppl 1 (2024)
- Publication Year :
- 2024
- Publisher :
- Sociedade Brasileira de Genética, 2024.
-
Abstract
- Abstract Transposable elements are repetitive and mobile DNA segments that can be found in virtually all organisms investigated to date. Their complex structure and variable nature are particularly challenging from the genomic annotation point of view. Many softwares have been developed to automate and facilitate TEs annotation at the genomic level, but they are highly heterogeneous regarding documentation, usability and methods. In this review, we revisited the existing software for TE genomic annotation, concentrating on the most often used ones, the methodologies they apply, and usability. Building on the state of the art of TE annotation software we propose best practices and highlight the strengths and weaknesses from the available solutions.
- Subjects :
- Transposable elements
bioinformatics
annotation
classification
Genetics
QH426-470
Subjects
Details
- Language :
- English
- ISSN :
- 16784685
- Volume :
- 46
- Issue :
- 3 suppl 1
- Database :
- Directory of Open Access Journals
- Journal :
- Genetics and Molecular Biology
- Publication Type :
- Academic Journal
- Accession number :
- edsdoj.2bb20ce5b0934ea39595bad45511b16e
- Document Type :
- article
- Full Text :
- https://doi.org/10.1590/1678-4685-gmb-2023-0138