Missing value imputation strategies for metabolomics data

Electrophoresis

Volumn 36, Issue 24, 2015, Pages 3050-3060

  Armitage, Emily Grace ^a   Godzien, Joanna ^a   Alonso Herranz, Vanesa ^a   López Gonzálvez, Ángeles ^a   Barbas, Coral ^a  

^a UNIVERSIDAD SAN PABLO CEU   (Spain)

Author keywords

CE MS; Data; False discovery rate; Imputation; K nearest neighbour; Metabolomics; Missing values

Indexed keywords

CE-MS; DATA; FALSE DISCOVERY RATE; IMPUTATION; IMPUTATION STRATEGY; K-NEAR NEIGHBOR; METABOLOMICS; MISSING VALUE IMPUTATION; MISSING VALUES; NEAREST-NEIGHBOUR;

METABOLOMICS; STATISTICAL SIGNIFICANCE; ALGORITHM; BLOOD; CAPILLARY ELECTROPHORESIS; HUMAN; MASS SPECTROMETRY; METABOLOME; PROCEDURES;

BIOLOGICAL MARKER;

ALGORITHMS; BIOMARKERS; ELECTROPHORESIS, CAPILLARY; HUMANS; MASS SPECTROMETRY; METABOLOME; METABOLOMICS;

EID: 84954398077     PISSN: 01730835     EISSN: 15222683     Source Type: Journal    
DOI: 10.1002/elps.201500352     Document Type: Article

References (23)

1. Godzien, J., Alonso-Herranz, V., Barbas, C., Armitage, E. G., Metabolomics 2014, 11, 518-528.
2. Kirwan, J. A., Weber, R. J. M., Broadhurst, D. I., Viant, M. R., Sci. Data 2014, 1, Article number: 140012 (2014), doi:10.1038/sdata.2014.12.
3. Krug, S., Kastenmüller, G., Stückler, F., Rist, M. J., Skurk, T., Sailer, M., Raffler, J., Römisch-Margl, W., Adamski, J., Prehn, C., Frank, T., Engel, K.-H., Hofmann, T., Luy, B., Zimmermann, R., Moritz, F., Schmitt-Kopplin, P., Krumsiek, J., Kremer, W., Huber, F., Oeh, U., Theis, F. J., Szymczak, W., Hauner, H., Suhre, K., Daniel, H., FASEB J. 2012, 26, 2607-2619.
4. Navarrete, A., Armitage, E. G., Musteanu, M., García, A., Mastrangelo, A., Bujak, R., López-Casas, P. P., Hidalgo, M., Barbas, C., Pharmacol. Res. Persp. 2014, 2, e00067. DOI: 10.1002/prp2.67.
5. Qiu, Y., Rajagopalan, D., Connor, S., Damian, D., Zhu, L., Handzel, A., Hu, G., Amanullah, A., Bao, S., Woody, N., MacLean, D., Lee, K., Vanderwall, D., Ryan, T., Metabolomics 2008, 4, 337-346.
6. Bijlsma, S., Bobeldijk, I., Verheij, E. R., Ramaker, R., Kochhar, S., Macdonald, I. A., van Ommen, B., Smilde, A. K., Anal. Chem. 2005, 78, 567-574.
7. Koek, M. M., van der Kloet, F. M., Kleemann, R., Kooistra, T., Verheij, E. R., Hankemeier, T., Metabolomics 2011, 7, 1-14.
8. Taylor, N., Weber, R. M., Southam, A., Payne, T., Hrydziuszko, O., Arvanitis, T., Viant, M., Metabolomics 2009, 5, 44-58.
9. Jansen, J. J., Hoefsloot, H. C. J., Boelens, H. F. M., van der Greef, J., Smilde, A. K., Bioinformatics 2004, 20, 2438-2446.
10. Dallmann, R., Viola, A. U., Tarokh, L., Cajochen, C., Brown, S. A., Proc. Natl. Acad. Sci. USA 2012, 109, 2625-2629.
11. Sun, X., Weckwerth, W., Metabolomics 2012, 8, 81-93.
12. Denkert, C., Budczies, J., Kind, T., Weichert, W., Tablack, P., Sehouli, J., Niesporek, S., Könsgen, D., Dietel, M., Fiehn, O., Cancer Res. 2006, 66, 10795-10804.
13. Koulman, A., Woffendin, G., Narayana, V. K., Welchman, H., Crone, C., Volmer, D. A., Rapid Comm. Mass Spectrometry 2009, 23, 1411-1418.
14. Wu, Z., Li, D., Meng, J., Wang, H., in: Esposito Vinzi, V., Chin, W. W., Henseler, J., Wang, H. (Eds.), Handbook of Partial Least Squares, Springer, Berlin He idelberg 2010, pp. 757-774.
15. Smith, C. A., Want, E. J., O'Maille, G., Abagyan, R., Siuzdak, G., Anal. Chem. 2006, 78, 779-787.
16. Neuweger, H., Albaum, S. P., Dondrup, M., Persicke, M., Watt, T., Niehaus, K., Stoye, J., Goesmann, A., Bioinformatics 2008, 24, 2726-2732.
17. Xia, J., Psychogios, N., Young, N., Wishart, D. S., Nucleic Acids Res. 2009, 37, W652-W660.
18. Huan, T., Li, L., Anal. Chem. 2015, 87, 1306-1313.
19. Jankevics, A., Merlo, M., de Vries, M., Vonk, R., Takano, E., Breitling, R., Metabolomics 2012, 8, 29-36.
20. Gromski, P. S., Xu, Y., Kotze, H. L., Correa, E., Ellis, D. I., Armitage, E. G., Turner, M. L., Goodacre, R., Metabolites 2014, 4, 433-452.
21. Taylor, S. L., Leiserowitz, G. S., Kim, K., Stat. Appl. Genet. Mol. Biol. 2013, 12, 703-722.
22. Naz, S., Garcia, A., Rusak, M., Barbas, C., Anal. Bioanal. Chem. 2013, 405, 4849-4858.
23. Troyanskaya, O., Cantor, M., Sherlock, G., Brown, P., Hastie, T., Tibshirani, R., Botstein, D., Altman, R. B., Bioinformatics 2001, 17, 520-525.