ArticleFrontiers in molecular biosciences2020
ReCodLiver0.9: Overcoming Challenges in Genome-Scale Metabolic Reconstruction of a Non-model Species.
Article in Frontiers in molecular biosciences, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 8 papers.
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8 citing papers in PubMed, 17 citations in OpenAlex.
- Omics technologies in aquafeed: unlocking the black box towards systems biology.Functional & integrative genomics · 2026Review
- Metabolic modeling of host-microbe interactions.Computational and structural biotechnology journal · 2025Review
- Genome-scale metabolic models applied for human health and biopharmaceutical engineering.Quantitative biology (Beijing, China) · 2023Review
- Metabolic network reconstruction ofFrontiers in microbiology · 2023Review
- SALARECON connects the Atlantic salmon genome to growth and feed efficiency.PLoS computational biology · 2022Article
- Review
- The chemical defensome of five model teleost fish.Scientific reports · 2021Article
- ReCodLiver0.9: Overcoming Challenges in Genome-Scale Metabolic Reconstruction of a Non-model Species.Frontiers in molecular biosciences · 2020Article
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Authors and funding
9 authors at 4 institutions in 3 countries.
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Abstract
The availability of genome sequences, annotations, and knowledge of the biochemistry underlying metabolic transformations has led to the generation of metabolic network reconstructions for a wide range of organisms in bacteria, archaea, and eukaryotes. When modeled using mathematical representations, a reconstruction can simulate underlying genotype-phenotype relationships. Accordingly, genome-scale metabolic models (GEMs) can be used to predict the response of organisms to genetic and environmental variations. A bottom-up reconstruction procedure typically starts by generating a draft model from existing annotation data on a target organism. For model species, this part of the process can be straightforward, due to the abundant organism-specific biochemical data. However, the process becomes complicated for non-model less-annotated species. In this paper, we present a draft liver reconstruction, ReCodLiver0.9, of Atlantic cod (
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