Database provided for metid

Xiaotao Shen PhD (https://www.shenxt.info/)

Created on 2020-03-28 and updated on 2022-09-19

Source: vignettes/public_databases.Rmd

In-house MS2 databases from Michael Snyder lab

1. Michael Snyder HILIC databases

  • Professor Michael Snyder’s lab. More than 1,000 metabolites.

  • Download here

2. Michael Snyder RPLC databases

  • Professor Michael Snyder’s lab. More than 1,000 metabolites.

  • Download here

In-house MS2 databases from Caroline Johnson lab

1. Caroline Johnson HILIC databases

2. Caroline Johnson RPLC databases

Public MS2 databases

1. HMDB database

2. MassBank database

3. MoNA database

4. Orbitrap database

5. Fiehn HILIC database

If you need this database, please contact .

Public MS1 databases

1. HMDB MS1 database

2. KEGG MS1 database

3. Drugbank database

4. T3DB database

5. Blood exposome database

Session information 

sessionInfo()
#> R version 4.2.1 (2022-06-23)
#> Platform: x86_64-apple-darwin17.0 (64-bit)
#> Running under: macOS Big Sur ... 10.16
#> 
#> Matrix products: default
#> BLAS:   /Library/Frameworks/R.framework/Versions/4.2/Resources/lib/libRblas.0.dylib
#> LAPACK: /Library/Frameworks/R.framework/Versions/4.2/Resources/lib/libRlapack.dylib
#> 
#> locale:
#> [1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8
#> 
#> attached base packages:
#> [1] stats     graphics  grDevices utils     datasets  methods   base     
#> 
#> loaded via a namespace (and not attached):
#>  [1] rprojroot_2.0.3   digest_0.6.29     R6_2.5.1          jsonlite_1.8.0   
#>  [5] magrittr_2.0.3    evaluate_0.15     stringi_1.7.6     rlang_1.0.3      
#>  [9] cachem_1.0.6      cli_3.3.0         rstudioapi_0.13   fs_1.5.2         
#> [13] jquerylib_0.1.4   bslib_0.3.1       ragg_1.2.2        rmarkdown_2.14   
#> [17] pkgdown_2.0.5     textshaping_0.3.6 desc_1.4.1        tools_4.2.1      
#> [21] stringr_1.4.0     purrr_0.3.4       yaml_2.3.5        xfun_0.31        
#> [25] fastmap_1.1.0     compiler_4.2.1    systemfonts_1.0.4 memoise_2.0.1    
#> [29] htmltools_0.5.2   knitr_1.39        sass_0.4.1