Detection of cancer using advanced computerized analysis of infrared spectra of peripheral blood

IEEE Transactions on Biomedical Engineering

Volumn 60, Issue 2, 2013, Pages 343-353

  Ostrovsky, Ela ^a,b   Zelig, Udi ^a,b   Gusakova, Irina ^c   Ariad, Samuel ^c   Mordechai, Shaul ^a   Nisky, Ilana ^d   Kapilushnik, Joseph ^a,c  

^a BEN GURION UNIVERSITY OF THE NEGEV   (Israel)

^b Todos Medical Ltd   (Israel)

^c BEN GURION UNIVERSITY OF THE NEGEV   (Israel)

^d Stanford University   (United States)

Author keywords

Cancer detection; Fisher's linear discriminant analysis (FLDA); Fourier transform infrared (FTIR); plasma; principle component analysis (PCA)

Indexed keywords

BIOCHEMICAL ANALYSIS; CANCER DETECTION; CANCER PATIENTS; COMPUTERIZED ANALYSIS; FISHER'S LINEAR DISCRIMINANT ANALYSIS; FOURIER TRANSFORM INFRARED; HEALTHY CONTROLS; INFRARED SPECTRUM; LEAVE-ONE-OUT CROSS VALIDATIONS; MOLECULAR COMPOSITIONS; PERIPHERAL BLOOD; PRINCIPLE COMPONENT ANALYSIS; SOLID TUMORS;

BLOOD; DISCRIMINANT ANALYSIS; DISEASES; FEATURE EXTRACTION; FOURIER TRANSFORM INFRARED SPECTROSCOPY; PLASMAS; TUMORS;

PRINCIPAL COMPONENT ANALYSIS;

ADULT; AGED; ARTICLE; BLOOD SAMPLING; CANCER DIAGNOSIS; CANCER LOCALIZATION; CANCER PATIENT; CANCER STAGING; CLINICAL ARTICLE; CONTROLLED STUDY; FEMALE; HUMAN; INFRARED SPECTROSCOPY; MALE; PRINCIPAL COMPONENT ANALYSIS; SENSITIVITY AND SPECIFICITY; SIGNAL NOISE RATIO; SOLID TUMOR;

ADULT; CASE-CONTROL STUDIES; DISCRIMINANT ANALYSIS; HUMANS; MALE; MIDDLE AGED; MONTE CARLO METHOD; NEOPLASMS; PRINCIPAL COMPONENT ANALYSIS; REPRODUCIBILITY OF RESULTS; SENSITIVITY AND SPECIFICITY; SIGNAL PROCESSING, COMPUTER-ASSISTED; SPECTROSCOPY, FOURIER TRANSFORM INFRARED; TUMOR MARKERS, BIOLOGICAL;

EID: 84872538951     PISSN: 00189294     EISSN: 15582531     Source Type: Journal    
DOI: 10.1109/TBME.2012.2226882     Document Type: Article

References (50)

1. R. Siegel, E.Ward,O.Brawley, and A. Jemal, "Cancer statistics, 2011: The impact of eliminating socioeconomic and racial disparities on premature cancer deaths," CA Cancer J. Clin., vol. 61, no. 4, pp. 212-236, Jul./Aug. 2011.
2. A. Jemal, R. Siegel, J. Xu, and E. Ward, "Cancer statistics, 2010," CA Cancer J. Clin., vol. 60, no. 5, pp. 277-300, Sep./Oct. 2010.
3. E. Tumino, R. Sacco, M. Bertini, M. Bertoni, G. Parisi, and A. Capria, "Endotics system vs colonoscopy for the detection of polyps," World J. Gastroentero., vol. 16, no. 43, pp. 5452-5456, Nov. 2010.
4. C. D. Lehman, C. Gatsonis, C. K. Kuhl, R. E. Hendrick, E. D. Pisano, L. Hanna, S. Peacock, S. F. Smazal, D. D. Maki, and T. B. Julian, "MRI evaluation of the contralateral breast in women with recently diagnosed breast cancer," N Engl. J. Med., vol. 356, no. 13, pp. 1295-1303, Mar. 2007. (Pubitemid 46513295)
5. M. Pennant, Y. Takwoingi, L. Pennant, C. Davenport, A. Fry-Smith, A. Eisinga, L. Andronis, T. Arvanitis, J. Deeks, and C. Hyde, "A systematic review of positron emission tomography (PET) and positron emission tomography/computed tomography (PET/CT) for the diagnosis of breast cancer recurrence," Health Technol. Assessment, vol. 14, no. 50, pp. 1- 103, Oct. 2010.
6. T. B. Bevers, B. O. Anderson, E. Bonaccio, S. Buys, M. B. Daly, P. J. Dempsey, W. B. Farrar, I. Fleming, J. E. Garber, and R. E. Harris, "Clinical practice guidelines in oncology: Breast cancer screening and diagnosis," Nat. Comprehens. Cancer Netw., vol. 7, no. 10, pp. 1060-1096, Nov. 2009.
7. K. M. Kelly, J. Dean, W. S. Comulada, and S. J. Lee, "Breast cancer detection using automated whole breast ultrasound and mammography in radiographically dense breasts," Eur. Radiol., vol. 20, no. 3, pp. 734-742, Mar. 2010.
8. R. A. Smith, V. Cokkinides, D. Brooks, D. Saslow, and O. W. Brawley, "Cancer screening in the United States, 2010: A review of current American Cancer Society guidelines and issues in cancer screening," CA Cancer J. Clin., vol. 60, no. 2, pp. 99-119, Mar./Apr. 2010.
9. H.Xue, B. Lu, andM. Lai, "The cancer secretome:Areservoir of biomarkers," J. Transl. Med., vol. 6, no. 1, pp. 6-52, Sep. 2008.
10. H. D. Nelson, K. Tyne, A. Naik, C. Bougatsos, B. K. Chan, and L. Humphrey, "Screening for breast cancer:An update for the U.S. Preventive Services Task Force," Annu. Int. Med, vol. 151, no. 10, pp. 727-737, Nov. 2009.
11. Q. B. Li,X. J. Sun,Y. Z. Xu, L. M.Yang,Y. F. Zhang, S. F.Weng, J. S. Shi, and J. G.Wu, "Diagnosis of gastric inflammation and malignancy in endoscopic biopsies based on Fourier transform infrared spectroscopy," Clin. Chem., vol. 51, no. 2, pp. 346-350, Feb. 2005.
12. A. Zwielly, S. Mordechai, I. Sinielnikov, A. Salman, E. Bogomolny, and S. Argov, "Advanced statistical techniques applied to comprehensive FTIR spectra on human colonic tissues," Med. Phys., vol. 37, no. 3, pp. 1047- 1055, Mar. 2010.
13. M. J. Baker, E. Gazi, M. D. Brown, J. H. Shanks, P. Gardner, and N. W. Clarke, "FTIR-based spectroscopic analysis in the identification of clinically aggressive prostate cancer," Brit. J. Cancer, vol. 99, no. 11, pp. 1859-1866, Dec. 2008.
14. D. I. Ellis andR.Goodacre, "Metabolic fingerprinting in disease diagnosis: Biomedical applications of infrared and Raman spectroscopy," Analyst, vol. 131, no. 10, pp. 875-885, Aug. 2006. (Pubitemid 44126542)
15. E. Bogomolny, M. Huleihel, Y. Suproun, R. K. Sahu, and S. Mordechai, "Early spectral changes of cellular malignant transformation using Fourier transform infraredmicrospectroscopy," J. Biomed., vol. 12, no. 2, pp. 1-9, Mar./Apr. 2007.
16. Z. Movasaghi, S. Rehman, and D. I. Rehman, "Fourier transform infrared (FTIR) spectroscopy of biological tissues," Appl. Spectrosc. Rev., vol. 43, no. 2, pp. 134-179, Mar. 2008.
17. P. R. Griffiths and J. A. De Haseth, Fourier Transform Infrared Spectrometry, 2nd ed. Hoboken, NJ: Wiley InterScience, 2007.
18. B. Handy, "The clinical utility of tumor markers," Labmedicine, vol. 40, no. 2, pp. 99-103, Feb. 2009.
19. N. L. Anderson and N. G. Anderson, "The human plasma proteome: History, character, and diagnostic prospects," Mol. Cell Proteom., vol. 1, no. 11, pp. 845-867, Nov. 2002.
20. J. Jesneck, S.Mukherjee, Z. Yurkovetsky,M. Clyde, J.Marks, A. Lokshin, and J. Lo, "Do serum biomarkers really measure breast cancer?," BMC Cancer, vol. 9, no. 164, pp. 1-13, May 2009.
21. S. Jahr, H. Hentze, S. Englisch, D. Hardt, F. O. Fackelmayer, R. D. Hesch, and R. Knippers, "DNA fragments in the blood plasma of cancer patients: Quantitations and evidence for their origin from apoptotic and necrotic cells," Cancer Res., vol. 61, no. 4, pp. 1659-1665, Feb. 2001. (Pubitemid 34292602)
22. H. Schwarzenbach, D. S. Hoon, and K. Pantel, "Cell-free nucleic acids as biomarkers in cancer patients," Nat. Rev. Cancer, vol. 11, no. 6, pp. 426- 437, Jun. 2011.
23. D. L. Swets and J. Weng, "Using discriminant eigen features for image retrieval," IEEE Trans. Pattern Anal.Mach. Intell., vol. 18, no. 8, pp. 831- 836, Aug. 1996. (Pubitemid 126772824)
24. P. D. Lewis, K. E Lewis, R. Ghosal, S. Bayliss, A. J. Lloyd, J. Wills, R. Godfrey, P. Kloer, and L. A. J.Mur, "Evaluation of FTIR Spectroscopy as a diagnostic tool for lung cancer using sputum," BMC Cancer, vol. 640, no. 10, pp. 1-10, Nov. 2010.
25. N. S Ozek, S. Tuna, A. E. Erson-Bensan, and F. Severcan, "Characterization of microRNA-125b expression in MCF7 breast cancer cells by ATR-FTIR spectroscopy," Analyst, vol. 135, no. 12, pp. 3094-3102, Oct. 2010.
26. C. Petibois, G. Cazorla, A. Cassaigne, and G. Deleris, "Plasma protein contents determined by Fourier transform infrared spectrometry," Clin. Chem., vol. 47, no. 4, pp. 730-738, Apr. 2001. (Pubitemid 32275818)
27. G. T. Webster, J. Dusting, S. Balabani, and E.W. Blanch, "Detecting the early onset of shear-induced fibril formation of insulin in situ," J. Phys. Chem. B., vol. 115, no. 11, pp. 2617-2626, Mar. 2011.
28. K. Meissl, E. Smidt, and M. Schwanninger, "Prediction of humic acid content and respiration activity of biogenic waste by means of Fourier transform infrared (FTIR) spectra and partial least squares regression (PLS-R) models," Talanta, vol. 72, no. 2, pp. 791-799, Apr. 2007. (Pubitemid 46550646)
29. L. Corte, L. Antonielli, L. Roscini, F. Fatichenti, and G. Cardinali, "Influence of cell parameters in Fourier transform infrared spectroscopy analysis of whole yeast cells," Analyst, vol. 136, no. 11, pp. 2339-2349, Jun. 2011.
30. N. Toyran, P. Lasch, D. Naumann, B. Turan, and F. Severcan, "Early alterations in myocardia and vessels of the diabetic rat heart: An FTIR microspectroscopic study," Biochem. J., vol. 397, no. 3, pp. 427-436, Aug. 2006. (Pubitemid 44187501)
31. W. H. Press, S. A. Teukolsky,W. T. Vetterling, and B. P. Flannery, Numerical Recipes in C: The Art of Scientific Computing, 2nd ed. Cambridge, NY: Cambridge Univ. Press, 1992, pp. 650-655.
32. C. Yang, Z. He, and W. Yu, "Comparison of public peak detection algorithms for MALDI mass spectrometry data analysis," BMC Bioinformat., vol. 10, no. 4, pp. 1-13, Jan. 2009.
33. H. Abdi and L. J. Williams, Principal Component Analysis. NewYork: Wiley, Jul. 2010, vol. 2, no. 4.
34. K. Torkkola, "Feature extraction by non-parametric mutual information maximization," J. Mach. Learn. Res., vol. 3, pp. 1415-1438, 2003.
35. C. M. Bishop, Neural Networks for Pattern Recognition. Oxford, U.K.: Oxford Univ. Press, 1995, chs. 3.6, 8.6, 9.1, 9.2, pp. 105-111, 310-319, 333-346.
36. R. O. Duda, P. E. Hart, and D. G. Stork, Pattern Classification. New York: Wiley, 2001, chs. 4.10, 9.3, 10.13.1, pp. 199-206, 465-470, 568.
37. J. L. Rodgers, W. A. Nicewander, and L. Toothaker, "Linearly independent, orthogonal and uncorrelated variables," Amer. Statist., vol. 38, pp. 133-134, 1984.
38. S. Mika, G. Ratsch, J. Weston, B. Scholkopf, and K. Mullers, "Fisher discriminant analysis with kernels," in Proc. IEEE Signal Process. Soc. Workshop Neural Netw. Signal Process. IX, Aug. 1999, pp. 41-48. (Pubitemid 30510358)
39. J. Cohen, Statistical Power Analysis for Behavioral Sciences, 2nd ed. Hillsdale, NJ: Lawrence Erlbaum Associates, 1988.
40. M. Chang, Modern Issues and Methods in Biostatistics. New York: Springer, 2011, ch. 9, pp. 233-258.
41. H. Fabian, M. Jackson, L. Murphy, P. H. Watson, I. Fichtner, and H. H. Mantsch, "A comparative infrared spectroscopic study of human breast tumors and breast tumor cell engrafts," Biospectroscopy, vol. 1, no. 1, pp. 37-45, Jan. 1995.
42. M. F. K. Fung, M. K. Senterman, N. Z. Mikhael, S. Lacelle, and P. T. T. Wong, "Pressure-tuning Fourier transform infrared spectroscopic study of carcinogenesis in human endometrium," Biospectroscopy, vol. 2, no. 3, pp. 155-165, 1996. (Pubitemid 126790027)
43. H. P. Wang, H. C. Wang, and Y. J. Huang, "Microscopic FTIR studies of lung cancer cells in pleural fluid," Sci. Total Environ., vol. 204, no. 3, pp. 283-287, Oct. 1997. (Pubitemid 27394254)
44. G. I. Dovbeshko, N. Y. Gridina, E. B. Kruglova, and O. P. Pashchuk, "FTIR spectroscopy studies of nucleic acid damage," Talanta, vol. 53, no. 1, pp. 233-246, Oct. 2000.
45. M. Huleihel, A. Salman, V. Erukhimovich, J. Ramesh, Z. Hammody, and S. Mordechai, "Novel optical method for study of viral carcinogenesis in vitro," J. Biochem. Biophys. Methods, vol. 50, no. 2-3, pp. 111-121, Jan. 2002. (Pubitemid 34015911)
46. G. I. Dovbeshko, V. I. Chegel, N. Y. Gridina, O. P. Repnytska, Y. M. Shirshov, V. P. Tryndiak, I. M. Todor, and G. I. Solyanik, "Surface enhanced IR absorption of nucleic acids from tumor cells: FTIR reflectance study," Biopolymers, vol. 67, no. 6, pp. 470-486, 2002.
47. R. K. Dukor, "Vibrational spectroscopy in the detection of cancer," in Handbook of Vibrational Spectroscopy, J. M. Chalmers and P. R. Griffiths, Eds. New York: Wiley, 2001, pp. 3335-3361.
48. B. R. Wood, M. A. Quinn, F. R. Burden, and D. McNaughton, "An investigation into FT-IR spectroscopy as a bio-diagnostic tool for cervical cancer," Biospectroscopy, vol. 2, pp. 143-153, 1996. (Pubitemid 126790026)
49. C. Petibios and G. Deleris, "2D-FT-IR spectrometry: A new tool for the analysis of stress-induced plasma content changes," Vib. Spectrosc., vol. 32, no. 1, pp. 117-128, Aug. 2003.
50. U. Zelig, S. Mordechai, G. Shubinsky, R. K. Sahu, M. Huleihel, E. Leibovitz, I. Nathan, and J. Kapelushnik, "Pre-screening and followup of childhood acute leukemia using biochemical infrared analysis of peripheral blood mononuclear cells," Biochim. Biophys. Acta, vol. 1810, no. 9, pp. 827-835, Sep. 2011.