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Metabolites from the Chalmers SysBio GEM (Wang et al., 2021)

Source: R/chalmers_gem.R
chalmers_gem_metabolites.Rd

Metabolites from the Chalmers SysBio GEM (Wang et al., 2021)

Usage

chalmers_gem_metabolites(organism = "Human")

Arguments

organism

Character or integer: an organism (taxon) identifier. Supported taxons are 9606 (Homo sapiens), 10090 (Mus musculus), 10116 (Rattus norvegicu), 7955 (Danio rerio), 7227 (Drosophila melanogaster) and 6239 (Caenorhabditis elegans).

Value

Data frame of metabolite identifiers.

References

Wang H, Robinson JL, Kocabas P, Gustafsson J, Anton M, Cholley PE, Huang S, Gobom J, Svensson T, Uhlen M, Zetterberg H, Nielsen J. Genome-scale metabolic network reconstruction of model animals as a platform for translational research. Proc Natl Acad Sci U S A. 2021 Jul 27;118(30):e2102344118. doi: doi:10.1073/pnas.2102344118 .

See also

Examples

chalmers_gem_metabolites()
#> # A tibble: 8,456 × 14
#>    mets      metsNoComp metBiGGID metKEGGID metHMDBID   metChEBIID  metPubChemID
#>    <chr>     <chr>      <chr>     <chr>     <chr>       <chr>              <dbl>
#>  1 MAM00001c MAM00001   carveol   C00964    NA          CHEBI:15389           NA
#>  2 MAM00001e MAM00001   carveol   C00964    NA          CHEBI:15389           NA
#>  3 MAM00002c MAM00002   appnn     C09880    HMDB0006525 CHEBI:36740         6654
#>  4 MAM00002e MAM00002   appnn     C09880    HMDB0006525 CHEBI:36740         6654
#>  5 MAM00003c MAM00003   NA        NA        NA          CHEBI:78990           NA
#>  6 MAM00003l MAM00003   NA        NA        NA          CHEBI:78990           NA
#>  7 MAM00003r MAM00003   NA        NA        NA          CHEBI:78990           NA
#>  8 MAM00003e MAM00003   NA        NA        NA          CHEBI:78990           NA
#>  9 MAM00004c MAM00004   NA        NA        NA          NA                    NA
#> 10 MAM00004m MAM00004   NA        NA        NA          NA                    NA
#> # ℹ 8,446 more rows
#> # ℹ 7 more variables: metLipidMapsID <chr>, metEHMNID <chr>,
#> #   metHepatoNET1ID <chr>, metRecon3DID <chr>, metMetaNetXID <chr>,
#> #   metHMR2ID <chr>, metRetired <chr>