Retrieve from the TaxSEA database which taxon sets (metabolite producers and disease signatures) contain a taxon of interest.
Value
A character vector containing the names of taxonomic sets where the specified taxon is present.
Examples
# Retrieve sets for Bifidobacterium longum
get_taxon_sets(taxon_to_fetch = "Bifidobacterium_longum")
#> [1] "GMRepoV2_Decreased_in_Adenoma"
#> [2] "GMRepoV2_Decreased_in_COVID-19"
#> [3] "GMRepoV2_Increased_in_Spondylitis,_Ankylosing"
#> [4] "GMRepoV2_Increased_in_Tuberculosis"
#> [5] "GutMGene_producers_of_4-Hydroxyphenylacetic_acid"
#> [6] "GutMGene_producers_of_5-Acetamido-2-azaniumylpentanoate"
#> [7] "GutMGene_producers_of_Acetate"
#> [8] "GutMGene_producers_of_Arctigenin"
#> [9] "GutMGene_producers_of_Daidzein"
#> [10] "GutMGene_producers_of_Dihydrocaffeic_acid"
#> [11] "GutMGene_producers_of_Genipin"
#> [12] "GutMGene_producers_of_Genistein"
#> [13] "GutMGene_producers_of_Ginsenoside-Rd"
#> [14] "GutMGene_producers_of_Glycitein"
#> [15] "GutMGene_producers_of_Hydroquinone"
#> [16] "GutMGene_producers_of_Indole-3-acetic_acid"
#> [17] "GutMGene_producers_of_Indole-3-lactic_acid"
#> [18] "GutMGene_producers_of_Kaempferol"
#> [19] "GutMGene_producers_of_Lactate"
#> [20] "GutMGene_producers_of_Loganetin"
#> [21] "GutMGene_producers_of_Oxyberberine"
#> [22] "GutMGene_producers_of_Phenylalanine"
#> [23] "MiMeDB_producers_of_3IAA"
#> [24] "MiMeDB_producers_of_Acetic_acid"
#> [25] "MiMeDB_producers_of_Butyric_acid"
#> [26] "MiMeDB_producers_of_Dimethylamine_"
#> [27] "MiMeDB_producers_of_Folic_acid"
#> [28] "MiMeDB_producers_of_GABA"
#> [29] "MiMeDB_producers_of_Glycocholic_acid"
#> [30] "MiMeDB_producers_of_Hydrogen_sulfide"
#> [31] "MiMeDB_producers_of_Indole"
#> [32] "MiMeDB_producers_of_Propionic_acid"
#> [33] "MiMeDB_producers_of_Taurocholic_acid"
#> [34] "Mucin_utilisers"
#> [35] "Valles-Colomer2019_MGB005.Tryptophan.synthesis"
#> [36] "Valles-Colomer2019_MGB006.Glutamate.synthesis.I"
#> [37] "Valles-Colomer2019_MGB007.Glutamate.synthesis.II"
#> [38] "Valles-Colomer2019_MGB029.ClpB.(ATP-dependent.chaperone.protein)"
#> [39] "Valles-Colomer2019_MGB032.Quinolinic.acid.synthesis"
#> [40] "Valles-Colomer2019_MGB033.Quinolinic.acid.degradation"
#> [41] "Valles-Colomer2019_MGB035.Isovaleric.acid.synthesis.II.(KADC.pathway)"
#> [42] "Valles-Colomer2019_MGB036.S-Adenosylmethionine.(SAM).synthesis"
#> [43] "Valles-Colomer2019_MGB043.Acetate.synthesis.I"
#> [44] "BacDive_Enzyme_acid_phosphatase"
#> [45] "BacDive_Enzyme_alanine_arylamidase_negative"
#> [46] "BacDive_Enzyme_Alanyl-Phenylalanyl-Proline_arylamidase"
#> [47] "BacDive_Enzyme_alkaline_phosphatase_negative"
#> [48] "BacDive_Enzyme_alpha-arabinosidase"
#> [49] "BacDive_Enzyme_alpha-chymotrypsin_negative"
#> [50] "BacDive_Enzyme_alpha-galactosidase"
#> [51] "BacDive_Enzyme_alpha-glucosidase"
#> [52] "BacDive_Enzyme_alpha-mannosidase_negative"
#> [53] "BacDive_Enzyme_arginine_dihydrolase_negative"
#> [54] "BacDive_Enzyme_beta-galactosidase"
#> [55] "BacDive_Enzyme_beta-Galactosidase_6-phosphate_negative"
#> [56] "BacDive_Enzyme_beta-glucosidase"
#> [57] "BacDive_Enzyme_beta-glucosidase_negative"
#> [58] "BacDive_Enzyme_beta-mannosidase_negative"
#> [59] "BacDive_Enzyme_catalase_negative"
#> [60] "BacDive_Enzyme_cystine_arylamidase_negative"
#> [61] "BacDive_Enzyme_cytochrome_c_oxidase_negative"
#> [62] "BacDive_Enzyme_esculin_hydrolysis"
#> [63] "BacDive_Enzyme_esterase"
#> [64] "BacDive_Enzyme_esterase_lipase"
#> [65] "BacDive_Enzyme_gelatinase_negative"
#> [66] "BacDive_Enzyme_glutamyl-glutamate_arylamidase_negative"
#> [67] "BacDive_Enzyme_glycin_arylamidase"
#> [68] "BacDive_Enzyme_glycyl_tryptophan_arylamidase_negative"
#> [69] "BacDive_Enzyme_hippurate_hydrolysis_negative"
#> [70] "BacDive_Enzyme_histidine_arylamidase"
#> [71] "BacDive_Enzyme_L-arginine_arylamidase"
#> [72] "BacDive_Enzyme_leucine_arylamidase"
#> [73] "BacDive_Enzyme_leucyl_glycin_arylamidase_negative"
#> [74] "BacDive_Enzyme_lipase_negative"
#> [75] "BacDive_Enzyme_N-acetyl-beta-glucosaminidase"
#> [76] "BacDive_Enzyme_N-acetyl-beta-glucosaminidase_negative"
#> [77] "BacDive_Enzyme_naphthol-AS-BI-phosphohydrolase_negative"
#> [78] "BacDive_Enzyme_phenylalanine_arylamidase"
#> [79] "BacDive_Enzyme_proline-arylamidase"
#> [80] "BacDive_Enzyme_pyrazinamidase"
#> [81] "BacDive_Enzyme_pyrrolidonyl_arylamidase_negative"
#> [82] "BacDive_Enzyme_serine_arylamidase"
#> [83] "BacDive_Enzyme_trypsin_negative"
#> [84] "BacDive_Enzyme_tyrosine_arylamidase"
#> [85] "BacDive_Enzyme_urease_negative"
#> [86] "BacDive_Enzyme_valine_arylamidase_negative"
#> [87] "BacDive_GC_GC_high"
#> [88] "BacDive_Gram_positive"
#> [89] "BacDive_Motility_no"
#> [90] "BacDive_Oxygen_anaerobe"
#> [91] "BacDive_Prod_acetoin_negative"
#> [92] "BacDive_Prod_indole_negative"
#> [93] "BacDive_Shape_rod"
#> [94] "BacDive_Temp_mesophile"
#> [95] "BacDive_Test_indole_test_negative"
#> [96] "BacDive_Test_voges-proskauer-test_negative"
#> [97] "BacDive_Uses_alpha-cyclodextrin_acid_negative"
#> [98] "BacDive_Uses_amygdalin_acid"
#> [99] "BacDive_Uses_amygdalin_acid_negative"
#> [100] "BacDive_Uses_arbutin_acid_negative"
#> [101] "BacDive_Uses_cellobiose_acid_negative"
#> [102] "BacDive_Uses_D-xylose_acid"
#> [103] "BacDive_Uses_D-xylose_fermentation"
#> [104] "BacDive_Uses_esculin_acid"
#> [105] "BacDive_Uses_fructose_acid"
#> [106] "BacDive_Uses_galactose_acid"
#> [107] "BacDive_Uses_gentiobiose_acid"
#> [108] "BacDive_Uses_gentiobiose_acid_negative"
#> [109] "BacDive_Uses_gluconate_acid_negative"
#> [110] "BacDive_Uses_glucose_acid"
#> [111] "BacDive_Uses_glucose_fermentation"
#> [112] "BacDive_Uses_glycerol_acid_negative"
#> [113] "BacDive_Uses_glycogen_acid_negative"
#> [114] "BacDive_Uses_inulin_acid"
#> [115] "BacDive_Uses_L-arabinose_acid"
#> [116] "BacDive_Uses_L-glutamate_negative"
#> [117] "BacDive_Uses_lactose_acid"
#> [118] "BacDive_Uses_lactose_fermentation"
#> [119] "BacDive_Uses_maltose_acid"
#> [120] "BacDive_Uses_maltose_fermentation"
#> [121] "BacDive_Uses_mannitol_acid_negative"
#> [122] "BacDive_Uses_mannitol_fermentation_negative"
#> [123] "BacDive_Uses_mannose_acid"
#> [124] "BacDive_Uses_mannose_fermentation"
#> [125] "BacDive_Uses_melezitose_acid"
#> [126] "BacDive_Uses_melezitose_acid_negative"
#> [127] "BacDive_Uses_melibiose_acid"
#> [128] "BacDive_Uses_methyl_alpha-D-glucopyranoside_acid"
#> [129] "BacDive_Uses_methyl_beta-D-glucopyranoside_acid_negative"
#> [130] "BacDive_Uses_N-acetyl-D-glucosamine_acid_negative"
#> [131] "BacDive_Uses_nitrate_reduction_negative"
#> [132] "BacDive_Uses_nitrite_reduction_negative"
#> [133] "BacDive_Uses_Potassium_5-ketogluconate_acid_negative"
#> [134] "BacDive_Uses_pullulan_acid_negative"
#> [135] "BacDive_Uses_raffinose_acid"
#> [136] "BacDive_Uses_raffinose_fermentation"
#> [137] "BacDive_Uses_rhamnose_acid_negative"
#> [138] "BacDive_Uses_ribose_acid"
#> [139] "BacDive_Uses_ribose_acid_negative"
#> [140] "BacDive_Uses_ribose_fermentation"
#> [141] "BacDive_Uses_salicin_acid_negative"
#> [142] "BacDive_Uses_sorbitol_acid_negative"
#> [143] "BacDive_Uses_starch_acid_negative"
#> [144] "BacDive_Uses_sucrose_acid"
#> [145] "BacDive_Uses_sucrose_fermentation"
#> [146] "BacDive_Uses_trehalose_acid_negative"
#> [147] "BacDive_Uses_tryptophan_negative"
#> [148] "BacDive_Uses_turanose_acid"