Identifying important ions and positions in mass spectrometry imaging data using CUR matrix decompositions

Analytical Chemistry

Volumn 87, Issue 9, 2015, Pages 4658-4666

  Yang, Jiyan ^a   Rübel, Oliver ^b   Prabhat, ^b   Mahoney, Michael W ^c   Bowen, Benjamin P ^b  

^a Stanford University   (United States)

^b LAWRENCE BERKELEY NATIONAL LABORATORY   (United States)

^c UNIVERSITY OF CALIFORNIA   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ALGORITHMS; APPROXIMATION THEORY; DRUG PRODUCTS; FACTORIZATION; IMPORTANCE SAMPLING; IONS; LEARNING ALGORITHMS; MASS SPECTROMETRY; PRINCIPAL COMPONENT ANALYSIS; SPECTROMETRY;

GREEDY SELECTION ALGORITHM; LOW RANK APPROXIMATIONS; MASS-SPECTROMETRY IMAGING; MATRIX FACTORIZATIONS; NONNEGATIVE MATRIX FACTORIZATION; PRINCIPLE COMPONENT ANALYSIS; SCALABLE IMPLEMENTATION; VALIDATION MEASUREMENTS;

MATRIX ALGEBRA;

ION; LIPID;

ALGORITHM; BRAIN; HUMAN; MASS SPECTROMETRY;

ALGORITHMS; BRAIN; HUMANS; IONS; LIPIDS; MASS SPECTROMETRY;

EID: 84928978490     PISSN: 00032700     EISSN: 15206882     Source Type: Journal    
DOI: 10.1021/ac5040264     Document Type: Article

References (22)

1. Caprioli, R. M.; Farmer, T. B.; Gile, J. Anal. Chem. 1997, 69, 4751-4760
2. McDonnell, L. A.; Heeren, R. M. A. Mass Spectrom Rev. 2007, 26, 606-643
3. Chughtai, K.; Heeren, R. M. A. Chem. Rev. 2010, 110, 3237-3277
4. Jolliffe, I. T. Principal Component Analysis, 2 nd ed.; Springer Science & Business Media: New York, 2002.
5. Lee, D. D.; Seung, H. S. Nature 1999, 401, 788-791
6. Jones, E. A.; Deininger, S.-O.; Hogendoorn, P. C. W.; Deelder, A. M.; McDonnell, L. A. J. Proteomics 2012, 75, 4962-4989
7. Alexandrov, T. BMC Bioinf. 2012, 13 (Suppl 16) S11
8. Reindl, W.; Bowen, B. P.; Balamotis, M. A.; Green, J. E.; Northen, T. R. Integr. Biol. 2011, 3, 460-467
9. Klinkert, I.; McDonnell, L. A.; Luxembourg, S. L.; Altelaar, A. F. M.; Amstalden, E. R.; Piersma, S. R.; Heeren, R. M. A. Rev. Sci. Instrum. 2007, 78, 053716
10. Lee, D. Y.; Platt, V.; Bowen, B.; Louie, K.; Canaria, C. A.; McMurray, C. T.; Northen, T. Integr. Biol. 2012, 4, 693
11. Jones, E. A.; van Remoortere, A.; van Zeijl, R. J. M.; Hogendoorn, P. C. W.; Bovée, J. V. M. G.; Deelder, A. M.; McDonnell, L. A. PLoS One 2011, 6, e24913
12. Mahoney, M. W.; Drineas, P. Proc. Natl. Acad. Sci. U.S.A. 2009, 106, 697-702
13. Drineas, P.; Mahoney, M. W.; Muthukrishnan, S. Siam J. Matrix Anal. Appl. 2008, 30, 844-881
14. Paschou, P.; Ziv, E.; Burchard, E. G.; Choudhry, S.; Rodriguez-Cintron, W.; Mahoney, M. W.; Drineas, P. PLoS Genet. 2007, 3, 1672-1686
15. Yip, C.-W.; Mahoney, M. W.; Szalay, A. S.; Csabai, I.; Budavari, T.; Wyse, R. F. G.; Dobos, L. Astron. J. 2014, 147, 110
16. Moore, E. H. Bull. Am. Math. Soc. 1920, 26, 385-397
17. Drineas, P.; Magdon-Ismail, M.; Mahoney, M. W.; Woodruff, D. P. J. Mach. Learn. Res. 2012, 13, 3475-3506
18. Bodor, A.; Csabai, I.; Mahoney, M. W.; Solymosi, N. BMC Bioinf. 2012, 13, 103
19. Louie, K. B.; Bowen, B. P.; Cheng, X.; Berleman, J. E.; Chakraborty, R.; Deutschbauer, A.; Arkin, A.; Northen, T. R. Anal. Chem. 2013, 85, 10856-10862
20. Rübel, O.; Greiner, A.; Cholia, S.; Louie, K.; Bethel, E. W.; Northen, T. R.; Bowen, B. P. Anal. Chem. 2013, 85, 10354-10361
21. Balamotis, M. A.; Tamberg, N.; Woo, Y. J.; Li, J.; Davy, B.; Kohwi-Shigematsu, T.; Kohwi, Y. Mol. Cell. Biol. 2012, 32, 333-347
22. Marko-Varga, G.; Fehniger, T. E.; Rezeli, M.; Döme, B.; Laurell, T.; Végvári, á. J. Proteomics 2011, 74, 982-992