Metabolomics-based discovery of diagnostic biomarkers for onchocerciasis

PLoS Neglected Tropical Diseases

Volumn 4, Issue 10, 2010, Pages

  Denery, Judith R ^a   Nunes, Ashlee A K ^a   Hixon, Mark S ^a,b   Dickerson, Tobin J ^a   Janda, Kim D ^a  

^a SCRIPPS RESEARCH INSTITUTE   (United States)

^b Takeda San Diego Inc   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BIOLOGICAL MARKER; FATTY ACID; IVERMECTIN; LIPID;

AFRICA; ARTICLE; BLOOD SAMPLING; CONTROLLED STUDY; DATA MINING; DERMATITIS; DIAGNOSTIC TEST; ENDEMIC DISEASE; GEOGRAPHY; HUMAN; LEARNING ALGORITHM; LIQUID CHROMATOGRAPHY; MACHINE LEARNING; MAJOR CLINICAL STUDY; MASS SPECTROMETRY; METABOLOMICS; MOLECULAR WEIGHT; ONCHOCERCA VOLVULUS; ONCHOCERCIASIS; PALPATION; SENSITIVITY ANALYSIS;

ANIMALS; ARTIFICIAL INTELLIGENCE; BIOLOGICAL MARKERS; CHROMATOGRAPHY, LIQUID; HUMANS; MASS SPECTROMETRY; METABOLOMICS; ONCHOCERCA VOLVULUS; ONCHOCERCIASIS; PLASMA; SERUM;

EID: 78449231933     PISSN: None     EISSN: None     Source Type: Journal    
DOI: 10.1371/journal.pntd.0000834     Document Type: Article

References (49)

1. Joint Action Forum (2005) Final Communique. Eleventh Session of the Joint Action Forum (JAF). Paris, France: African Programme For Onchocerciasis Control (APOC).
2. World Health Organization (2002) Strategic Direction for Research: Onchocerciasis Disease Burden and Epidemiological Trends World Health Organization.
3. Plaisier AP, van Oortmarssen GJ, Remme J, Habbema JD (1991) The reproductive lifespan of Onchocerca volvulus in West African savanna. Acta Trop 48: 271-284.
4. Richards FO, Jr., Boatin B, Sauerbrey M, Seketeli A (2001) Control of onchocerciasis today: status and challenges. Trends Parasitol 17: 558-563.
5. Awadzi K, Addy ET, Opoku NO, Plenge-Bonig A, Buttner DW (1995) The chemotherapy of onchocerciasis XX: ivermectin in combination with albendazole. Trop Med Parasitol 46: 213-220.
6. Pan American Health Organization PAHO (2008) Toward the Elimination of Onchocerciasis (River Blindness) in the Americas. Washington D.C.: 48th Directing Council.
7. Hoerauf A (2006) New strategies to combat filariasis. Expert Rev Anti Infect Ther 4: 211-222.
8. Hoerauf A (2008) Filariasis: new drugs and new opportunities for lymphatic filariasis and onchocerciasis. Curr Opin Infect Dis 21: 673-681.
9. Hoerauf A, Specht S, Buttner M, Pfarr K, Mand S, et al. (2008) Wolbachia endobacteria depletion by doxycycline as antifilarial therapy has macrofilaricidal activity in onchocerciasis: a randomized placebo-controlled study. Med Microbiol Immunol 197: 295-311.
10. Specht S, Mand S, Marfo-Debrekyei Y, Debrah AY, Konadu P, et al. (2008) Efficacy of 2- and 4-week rifampicin treatment on the Wolbachia of Onchocerca volvulus. Parasitol Res 103: 1303-1309.
11. Churcher TS, Pion SD, Osei-Atweneboana MY, Prichard RK, Awadzi K, et al. (2009) Identifying sub-optimal responses to ivermectin in the treatment of river blindness. Proc Natl Acad Sci U S A 106: 16716-16721.
12. Osei-Atweneboana MY, Eng JK, Boakye DA, Gyapong JO, Prichard RK (2007) Prevalence and intensity of Onchocerca volvulus infection and efficacy of ivermectin in endemic communities in Ghana: a two-phase epidemiological study. Lancet 369: 2021-2029.
13. Boatin BA, Toe L, Alley ES, Dembele N, Weiss N, et al. (1998) Diagnostics in onchocerciasis: future challenges. Ann Trop Med Parasitol 92 (Suppl 1): S41-45.
14. Stingl P (2009) Onchocerciasis: developments in diagnosis, treatment and control. Int J Dermatol 48: 393-396.
15. Boatin BA, Richards FO, Jr. (2006) Control of onchocerciasis. Adv Parasitol 61: 349-394.
16. Walsh MC, Brennan L, Malthouse JP, Roche HM, Gibney MJ (2006) Effect of acute dietary standardization on the urinary, plasma, and salivary metabolomic profiles of healthy humans. Am J Clin Nutr 84: 531-539.
17. Ritchie S (2006) Comprehensive metabolomic profiling of serum and cerebrospinal fluid: understanding disease, human variability, and toxicity. In: Burczynski ME, ed. Surrogate Tissue Analysis; Geneomic, Proteomic, and Metaobolomic Approaches. Boca RatonFL: CRC Press. pp 165-184.
18. Gomez Ravetti M, Moscato P (2008) Identification of a 5-protein biomarker molecular signature for predicting Alzheimer's disease. PLoS One 3: e3111.
19. Bovelstad HM, Nygard S, Storvold HL, Aldrin M, Borgan O, et al. (2007) Predicting survival from microarray data-a comparative study. Bioinformatics 23: 2080-2087.
20. Dolce G, Quintieri M, Serra S, Lagani V, Pignolo L (2008) Clinical signs and early prognosis in vegetative state: a decisional tree, data-mining study. Brain Inj 22: 617-623.
21. Zhang Z, Yu Y, Xu F, Berchuck A, van Haaften-Day C, et al. (2007) Combining multiple serum tumor markers improves detection of stage I epithelial ovarian cancer. Gynecol Oncol 107: 526-531.
22. Karlsson S, Olsson B, Klinga-Levan K (2009) Gene expression profiling predicts a three-gene expression signature of endometrial adenocarcinoma in a rat model. Cancer Cell Int 9: 12.
23. Jornsten R, Yu B (2003) Simultaneous gene clustering and subset selection for sample classification via MDL. Bioinformatics 19: 1100-1109.
24. Taylor HR, Keyvan-Larijani E, Newland HS, White AT, Greene BM (1987) Sensitivity of skin snips in the diagnosis of onchocerciasis. Trop Med Parasitol 38: 145-147.
25. Taylor HR, Pacque M, Munoz B, Greene BM (1990) Impact of mass treatment of onchocerciasis with ivermectin on the transmission of infection. Science 250: 116-118.
26. Smith CA, Want EJ, O'Maille G, Abagyan R, Siuzdak G (2006) XCMS: processing mass spectrometry data for metabolite profiling using nonlinear peak alignment, matching, and identification. Anal Chem 78: 779-787.
27. Dabney A, Storey JD, Warnes GR (2009) qvalue: Q-value estimation for false discovery rate control. R package version 1.18.0 ed.
28. Team RDC (2009) R: a language and environment for statistical computing. Vienna, Austria: R Foundation for Statistical Computing.
29. Hall M, Frank E, Holmes G, Pfahringer B, Reuteman P, et al. (2009) The WEKA Data Mining Software: An Update; SIGKDD Explorations. 11.
30. Smith CA, O'Maille G, Want EJ, Qin C, Trauger SA, et al. (2005) METLIN: a metabolite mass spectral database. Ther Drug Monit 27: 747-751.
31. Bradley JE, Unnasch TR (1996) Molecular approaches to the diagnosis of onchocerciasis. Adv Parasitol 37: 57-106.
32. Park J, Dickerson TJ, Janda KD (2008) Major sperm protein as a diagnostic antigen for onchocerciasis. Bioorg Med Chem 16: 7206-7209.
33. Crews B, Wikoff WR, Patti GJ, Woo HK, Kalisiak E, et al. (2009) Variability analysis of human plasma and cerebral spinal fluid reveals statistical significance of changes in mass spectrometry-based metabolomics data. Anal Chem 81: 8538-8544.
34. Smilde AK, van der Werf MJ, Schaller JP, Kistemaker C (2009) Characterizing the precision of mass-spectrometry-based metabolic profiling platforms. Analyst 134: 2281-2285.
35. Swets JA (1988) Measuring the accuracy of diagnostic systems. Science 240: 1285-1293.
36. Lasko TA, Bhagwat JG, Zou KH, Ohno-Machado L (2005) The use of receiver operating characteristic curves in biomedical informatics. J Biomed Inform 38: 404-415.
37. Wang Y, Utzinger J, Saric J, Li JV, Burckhardt J, et al. (2008) Global metabolic responses of mice to Trypanosoma brucei brucei infection. Proc Natl Acad Sci U S A 105: 6127-6132.
38. Li JV, Wang Y, Saric J, Nicholson JK, Dirnhofer S, et al. (2008) Global metabolic responses of NMRI mice to an experimental Plasmodium berghei infection. J Proteome Res 7: 3948-3956.
39. Saric J, Li JV, Wang Y, Keiser J, Bundy JG, et al. (2008) Metabolic profiling of an Echinostoma caproni infection in the mouse for biomarker discovery. PLoS Negl Trop Dis 2: e254.
40. Wang Y, Holmes E, Nicholson JK, Cloarec O, Chollet J, et al. (2004) Metabonomic investigations in mice infected with Schistosoma mansoni: an approach for biomarker identification. Proc Natl Acad Sci U S A 101: 12676-12681.
41. Vinayavekhin N, Homan EA, Saghatelian A (2010) Exploring disease through metabolomics. ACS Chem Biol 5: 91-103.
42. Basanez MG, Pion SD, Churcher TS, Breitling LP, Little MP, et al. (2006) River blindness: a success story under threat? PLoS Med 3: e371.
43. Dadzie Y, Neira M, Hopkins D (2002) Final Report of the Conference on the Eradicability of Onchocerciasis. AtlantaGeorgia: The Carter Center.
44. World Health Organization (2009) Onchocerciasis (river blindness). Report from the eighteenth Interamerican Conference on Onchocerciasis (IACO), November 2008. 0049-8114 (Print) 0049-8114 (Linking).
45. Cupp EW, Duke BO, Mackenzie CD, Guzman JR, Vieira JC, et al. (2004) The effects of long-term community level treatment with ivermectin (Mectizan) on adult Onchocerca volvulus in Latin America. Am J Trop Med Hyg 71: 602-607.
46. Cupp EW, Cupp MS (2005) Impact of ivermectin community-level treatments on elimination of adult Onchocerca volvulus when individuals receive multiple treatments per year. Am J Trop Med Hyg 73: 1159-1161.
47. Rodriguez-Perez MA, Lutzow-Steiner MA, Segura-Cabrera A, Lizarazo- Ortega C, Dominguez-Vazquez A, et al. (2008) Rapid suppression of Onchocerca volvulus transmission in two communities of the Southern Chiapas focus, Mexico, achieved by quarterly treatments with Mectizan. Am J Trop Med Hyg 79: 239-244.
48. Baek S, Tsai CA, Chen JJ (2009) Development of biomarker classifiers from high-dimensional data. Brief Bioinform 10: 537-546.
49. Hoerauf A, Mand S, Volkmann L, Buttner M, Marfo-Debrekyei Y, et al. (2003) Doxycycline in the treatment of human onchocerciasis: kinetics of Wolbachia endobacteria reduction and of inhibition of embryogenesis in female Onchocerca worms. Microbes Infect 5: 261-273.