@article{fdi:010076634,
  title = {{R}etrotransposons in plant genomes : structure, identification, and classification through bioinformatics and machine learning},
  author = {{O}rozco-{A}rias, {S}. and {I}saza, {G}. and {G}uyot, {R}omain},
  editor = {},
  language = {{ENG}},
  abstract = {{T}ransposable elements ({TE}s) are genomic units able to move within the genome of virtually all organisms. {D}ue to their natural repetitive numbers and their high structural diversity, the identification and classification of {TE}s remain a challenge in sequenced genomes. {A}lthough {TE}s were initially regarded as junk {DNA}, it has been demonstrated that they play key roles in chromosome structures, gene expression, and regulation, as well as adaptation and evolution. {A} highly reliable annotation of these elements is, therefore, crucial to better understand genome functions and their evolution. {T}o date, much bioinformatics software has been developed to address {TE} detection and classification processes, but many problematic aspects remain, such as the reliability, precision, and speed of the analyses. {M}achine learning and deep learning are algorithms that can make automatic predictions and decisions in a wide variety of scientific applications. {T}hey have been tested in bioinformatics and, more specifically for {TE}s, classification with encouraging results. {I}n this review, we will discuss important aspects of {TE}s, such as their structure, importance in the evolution and architecture of the host, and their current classifications and nomenclatures. {W}e will also address current methods and their limitations in identifying and classifying {TE}s.},
  keywords = {transposable elements ; retrotransposons ; function ; structure ; detection ; classification ; bioinformatics ; machine learning ; deep learning},
  booktitle = {},
  journal = {{I}nternational {J}ournal of {M}olecular {S}ciences},
  volume = {20},
  numero = {15},
  pages = {art. 3837 [31 p.]},
  ISSN = {1661-6596},
  year = {2019},
  DOI = {10.3390/ijms20153837},
  URL = {https://www.documentation.ird.fr/hor/fdi:010076634},
}