- author = "William B. Langdon and Justyna Petke and Ronny Lorenz",
- title = "Evolving better {RNAfold} structure prediction",
- booktitle = "EuroGP 2018: Proceedings of the 21st European Conference on Genetic Programming",
- year = "2018",
- month = "4-6 " # apr,
- editor = "Mauro Castelli and Lukas Sekanina and Mengjie Zhang",
- series = "LNCS",
- volume = "10781",
- publisher = "Springer Verlag",
- address = "Parma, Italy",
- pages = "220--236",
- organisation = "EvoStar, Species",
- keywords = "genetic algorithms, genetic programming, genetic improvement, GGGP, software~engineering, SBSE, Bioinformatics, local search, genomic and phenotypic Tabu restrictions, genetic repair: Poster",
- isbn13 = "978-3-319-77552-4",
-
URL = "
http://www.cs.ucl.ac.uk/staff/W.Langdon/ftp/papers/langdon_2018_EuroGP.pdf",
-
URL = "
https://rdcu.be/c9hWJ",
-
DOI = "
doi:10.1007/978-3-319-77553-1_14",
-
code_url = "https://github.com/ViennaRNA/ViennaRNA/compare/v2.4.4...v2.4.5",
- size = "16 pages",
- abstract = "Grow and graft genetic programming (GGGP) evolves more than 50000 parameters in a state-of-the-art C program to make functional source code changes which give more accurate predictions of how RNA molecules fold up. Genetic improvement updates 29percent of the dynamic programming free energy model parameters. In most cases (50.3percent) GI gives better predictions on 4655 known secondary structures from RNA_STRAND (29.0percent are worse and 20.7percent are unchanged, Indeed it also does better than parameters recommended by Andronescu, M., et al.: Bioinformatics 23(13) (2007) i19--i28",
-
notes = "New RNAfold parameters:
https://github.com/ViennaRNA/ViennaRNA/blob/34d23a07f633e8fe2366877e1e7e1d9a232dcd96/misc/rna_langdon2018.par
http://www.cs.ucl.ac.uk/staff/W.Langdon/gggp/rna_langdon2018.par
Poster: http://www.cs.ucl.ac.uk/staff/W.Langdon/egp2018/langdon_2018_poster.pdf
code: http://www.cs.ucl.ac.uk/staff/W.Langdon/ftp/ga-code/rnafold_ga.tar.gz
Incorporated into ViennaRNA version 2.4.5 (Release date: 2018-04-17) https://github.com/ViennaRNA/ViennaRNA/compare/v2.4.4...v2.4.5
cited by: * Becker 2019 https://doi.org/10.1101/571588 Chen 2019 https://doi.org/10.1016/j.compbiolchem.2019.107088 * Raden 2020 https://doi.org/10.1186/s12859-019-3143-4 Abdelbasset BOUKELIA PhD thesis 2020
Buckley 2021 https://doi.org/10.1101/2021.02.19.431970 Sripathi 2021 https://doi.org/10.5772/intechopen.97500
\cite{LIANG:2020:ASC} \cite{Liang:AI}
See also Andrews:2021:nargab http://doi.org/10.1093/nargab/lqab043
Part of \cite{Castelli:2018:GP} EuroGP'2018 held in conjunction with EvoCOP2018, EvoMusArt2018 and EvoApplications2018",
