ArticleBioinformatics (Oxford, England)2023
Codetta: predicting the genetic code from nucleotide sequence.
Article in Bioinformatics (Oxford, England), 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.
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Who cites it
17 citing papers in PubMed.
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- Frequent occurrence and predicted functions of tRNAs with 4-base-pair anticodon stems in bacteria: extended superwobble hypothesis.Nucleic acids research · 2026Article
- Identification of a deep-branching lineage of algae using environmental plastid genomes.Nature communications · 2025Article
- Expanded diversity of pedinophytes provides a window into the evolution of the genetic code in organelles.PLoS genetics · 2025Article
- Lineage-specific expansions of polinton-like viruses in photosynthetic cryptophytes.Microbiome · 2025Article
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- The cell biology and genome ofMolecular biology of the cell · 2025Article
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- The genome and comparative transcriptome of the euryhaline model ciliate Paramecium duboscqui reveal adaptations to environmental salinity.BMC biology · 2024Article
- Unique episymbiotic relationship between Candidatus Patescibacteria and Zoogloea in activated sludge flocs at a municipal wastewater treatment plant.Environmental microbiology reports · 2024Article
- Single-cell transcriptomic analysis reveals genome evolution in predatory litostomatean ciliates.European journal of protistology · 2024Article
- The P10K database: a data portal for the protist 10 000 genomes project.Nucleic acids research · 2024Article
- Multiple independent losses of sporulation and peptidoglycan in theMicrobial genomics · 2024Article
- The Genetic Code Assembles via Division and Fusion, Basic Cellular Events.Life (Basel, Switzerland) · 2023Article
- Identification of a non-canonical ciliate nuclear genetic code where UAA and UAG code for different amino acids.PLoS genetics · 2023Article
Corrections and comments
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Authors and funding
2 authors.
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Abstract
summaryCodetta is a Python program for predicting the genetic code table of an organism from nucleotide sequences. Codetta can analyze an arbitrary nucleotide sequence and needs no sequence annotation or taxonomic placement. The most likely amino acid decoding for each of the 64 codons is inferred from alignments of profile hidden Markov models of conserved proteins to the input sequence. AVAILABILITY AND IMPLEMENTATION: Codetta 2.0 is implemented as a Python 3 program for MacOS and Linux and is available from http://eddylab.org/software/codetta/codetta2.tar.gz and at http://github.com/kshulgina/codetta. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.
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