Imaging optical sensor arrays

Current Opinion in Chemical Biology

Volumn 6, Issue 5, 2002, Pages 689-695

  Walt, David R ^a  

^a TUFTS UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

CHEMICAL AGENT;

CELL; CHEMICAL ANALYSIS; DENSITY; DNA MICROARRAY; DNA PROBE; FIBER OPTIC BIOSENSOR; HUMAN; HYBRID; IMAGING; INFORMATION; MATERIALS; NONHUMAN; REVIEW; SCANNING ELECTRON MICROSCOPY; YEAST CELL;

EID: 0036803030     PISSN: 13675931     EISSN: None     Source Type: Journal    
DOI: 10.1016/S1367-5931(02)00372-1     Document Type: Review

References (56)

1. Szurdoki F., Michael K.L., Walt D.R. A duplexed microsphere-based fluorescent immunoassay. Anal Biochem. 291:2001;219-228.
2. Lockhart D.J., Winzeler E.A. Genomics, gene expression and DNA arrays. Nature. 405:2000;827-836. A comprehensive overview of the microarray field.
3. Tenenbaum S.A., Carson C.C., Lager P.J., Keene J.D. Identifying mRNA subsets in messenger ribonucleoprotein complexes by using cDNA arrays. Proc Natl Acad Sci USA. 97:2000;14085-14090.
4. Pilpel Y., Sudarsanam P., Church G.M. Identifying regulatory networks by combinatorial analysis of promoter elements. Nat Genet. 29:2001;153-159.
5. White K.P. Functional genomics and the study of development, variation and evolution. Nat Rev Genet. 2:2001;528-537.
6. Bulyk M.L., Huang X., Choo Y., Church G.M. Exploring the DNA-binding specificities of zinc fingers with DNA microarrays. Proc Natl Acad Sci USA. 98:2001;7158-7163.
7. West M., Blanchette C., Dressman H., Huang E., Ishida S., Spang R., Zuzan H., Olson J.A. Jr, Marks J.R., Nevins J.R. Predicting the clinical status of human breast cancer by using gene expression profiles. Proc Natl Acad Sci USA. 98:2001;11462-11467. The authors demonstrate the ability to predict clinical outcomes using gene-expression patterns.
8. Murray A.E., Lies D., Li G., Nealson K., Zhou J., Tiedje J.M. DNA/DNA hybridization to microarrays reveals gene-specific differences between closely related microbial genomes. Proc Natl Acad Sci USA. 98:2001;9853-9858.
9. Smoot J.C., Barbian K.D., Van Gompel J.J., Smoot L.M., Chaussee M.S., Sylva G.L., Sturdevant D.E., Ricklefs S.M., Porcella S.F., Parkins L.D., et al. Genome sequence and comparative microarray analysis of serotype M18 group A Streptococcus strains associated with acute rheumatic fever outbreaks. Proc Natl Acad Sci USA. 99:2002;4668-4673.
10. Israel D.A., Salama N., Krishna U., Rieger U.M., Atherton J.C., Falkow S., Peek R.M. Jr. Helicobacter pylorigenetic diversity within the gastric niche of a single human host. Proc Natl Acad Sci USA. 98:2001;14625-14630.
11. Shridhar V., Lee J., Pandita A., Iturria S., Avula R., Staub J., Morrissey M., Calhoun E., Sen A., Kalli K., et al. Genetic analysis of early- versus late-stage ovarian tumors. Cancer Res. 61:2001;5895-5904.
12. Bouras T., Southey M.C., Chang A.C., Reddel R.R., Willhite D., Glynne R., Henderson M.A., Armes J.E., Venter D.J. Stanniocalcin 2 is an estrogen-responsive gene coexpressed with the estrogen receptor in human breast cancer. Cancer Res. 62:2002;1289-1295.
13. Adorjan P., Distler J., Lipscher E., Model F., Mueller J., Pelet C., Braun A., Flori A.R., Guetig D., Grabs G., et al. Tumour class prediction and discovery by microarray-based DNA methylation analysis. Nucleic Acids Research. 30:2002;ee21/21-ee21/29.
14. Zhou Y., Gwadry F.G., Reinhold W.C., Miller L.D., Smith L.H., Scherf U., Liu E.T., Kohn K.W., Pommier Y., Weinstein J.N. Transcriptional regulation of mitotic genes by camptothecin-induced DNA damage: microarray analysis of dose- and time-dependent effects. Cancer Res. 62:2002;1688-1695.
15. Warrington J.A., Shah N.A., Chen X., Janis M., Liu C., Kondapalli S., Reyes V., Savage M.P., Zhang Z., Watts R., et al. New developments in high-throughput resequencing and variation detection using high density microarrays. Hum Mutat. 19:2002;402-409.
16. Lin H., Ho A.S., Haley-Vicente D., Zhang J., Bernal-Fussell J., Pace A.M., Hansen D., Schweighofer K., Mize N.K., Ford J.E. Cloning and characterization of IL-1HY2, a novel interleukin-1 family member. J Biol Chem. 276:2001;20597-20602.
17. Shoemaker D.D., Schadt E.E., Armour C.D., He Y.D., Garrett-Engele P., McDonagh P.D., Loerch P.M., Leonardson A., Lum P.Y., Cavet G., et al. Experimental annotation of the human genome using microarray technology. Nature. 409:2001;922-927.
18. Brenner S., Johnson M., Bridgham J., Golda G., Lloyd D.H., Johnson D., Luo S., McCurdy S., Foy M., Ewan M., et al. Gene expression analysis by massively parallel signature sequencing (MPSS) on microbead arrays. Nat Biotechnol. 18:2000;630-634.
19. Yeakley J.M., Fan J.-B., Doucet D., Luo L., Wickham E., Ye Z., Chee M.S., Fu X.-D. Profiling alternative splicing on fiber-optic arrays. Nat Biotechnol. 20:2002;353-358. This paper describes how microarrays can be used to detect alternative splicing.
20. Walt D.R. Bead-based fiber-optic arrays. Science. 287:2000;451-452.
21. Ferguson J., Steemers F., Walt D.R. High density fiber-optic DNA random microsphere array. Anal Chem. 72:2000;5618-5624. The authors show how random bead arrays can be used to identify various cystic fibrosis mutations in a high-density fibre array.
22. Epstein J., Lee M., Walt D.R. High-density fiber-optic genosensor microsphere array capable of zeptomole (10-21 mol) detection limits. Anal Chem. 74:2002;836-1840. This paper describes the most sensitive microarray detection limits to date by using a small number of very small sensing elements to generate a locally high DNA target concentration.
23. Steemers F.J., Ferguson J.A., Walt D.R. High-throughput screening of unlabeled DNA targets with randomly-ordered fiber-optic gene arrays. Nat Biotechnol. 18:2000;91-94. This paper describes the first use of molecular beacons in an array format.
24. Lee M., Walt D.R. A fiber-optic microarray biosensor using aptamers as receptors. Anal Biochem. 282:2000;142-146.
25. Albert K.J., Lewis N.S., Schauer C.L., Sotzing G.A., Stitzel S.E., Vaid T.P., Walt D.R. Cross-reactive chemical sensor arrays. Chem Rev. 100:2000;2595-2626.
26. Di Natale C., Martinelli E., D'Amico A. Counteraction of environmental disturbances of electronic nose data by independent component analysis. Sensors and Actuators B Chem. B82:2002;158-165.
27. Rakow N.A., Suslick K.S. A colorimetric sensor array for odor visualization. Nature. 406:2000;710-713.
28. 2, a crystalline vapoluminescent compound that detects vapor-phase aromatic hydrocarbons. J Am Chem Soc. 124:2002;1031-1039.
29. Burl M.C., Doleman B.J., Schaffer A., Lewis N.S. Assessing the ability to predict human percepts of odor quality from the detector responses of a conducting polymer composite-based electronic nose. Sensors and Actuators B Chemical. B72:2001;149-159.
30. Vaid T.P., Lewis N.S. The use of 'electronic nose' sensor responses to predict the inhibition activity of alcohols on the cytochrome P-450 catalyzed p-hydroxylation of aniline. Bioorg Med Chem. 8:2000;795-805.
31. Mohr G.J., Zhylyak G., Nezel T., Spichiger-Keller U.E., Kerness N., Brand O., Baltes H., Grummt U.-W. Using reactands in CMOS-based calorimetric sensors: new functional materials for electronic noses. Analytical Sciences. 18:2002;109-111.
32. Grate J.W., Moore L.K., Janzen D.E., Veltkamp D.J., Kaganove S., Drew S.M., Mann K.R. Steplike response behavior of a new vapochromic platinum complex observed with simultaneous acoustic wave sensor and optical reflectance measurements. Chem Mater. 14:2002;1058-1066.
33. Jurs P.C., Bakken G.A., McClelland H.E. Computational methods for the analysis of chemical sensor array data from volatile analytes. Chem Rev. 100:2000;2649-2678. An excellent review of computational methods used for performing pattern recognition in arrays.
34. Grate J.W., Patrash S.J., Kaganove S.N., Abraham M.H., Wise B.M., Gallagher N.B. Inverse least-squares modeling of vapor descriptors using polymer-coated surface acoustic wave sensor array responses. Anal Chem. 73:2001;5247-5259. The authors correlate responses from array sensors with vapour properties.
35. Albert K.J., Gill D.S., Pearce T.C., Walt D.R. Optical multi-bead arrays for simple and complex odor discrimination. Anal Chem. 73:2001;2501-2508.
36. Stitzel S.E., Cowen L.J., Albert K.J., Walt D.R. Array-to-array transfer of an artificial nose classifier. Anal Chem. 73:2001;5266-5271. The authors demonstrate the ability to use multiple arrays to perform odor classification without requiring retraining of the pattern recognition program.
37. Albert K.J., Myrick M.L., Brown S.B., James D.L., Milanovich F.P., Walt D.R. Field deployable sniffer for 2,4-dinitrotoluene detection. Environ Sci Technol. 35:2001;3193-3200.
38. Albert K.J., Walt D.R. High-speed fluorescence detection of explosives-like vapors. Anal Chem. 72:2000;1947-1955.
39. Gardner J.W., Shin H.W., Hines E.L. An electronic nose system to diagnose illness. Sens Actuators B. B70:2000;19-24.
40. Pavlou A.K., Magan N., Sharp D., Brown J., Barr H., Turner A.P. An intelligent rapid odour recognition model in discrimination of Helicobacter pylori and other gastroesophageal isolates in vitro. Biosensors Bioelectronics. 15:2000;333-342.
41. Schauer C., Steemers F., Walt D.R. A cross-reactive class-selective enzymatic array assay. J Am Chem Soc. 123:2001;9443-9444.
42. Wiskur S.L., Anslyn E.V. Using a synthetic receptor to create an optical-sensing ensemble for a class of analytes: a colorimetric assay for the aging of scotch. J Am Chem Soc. 123:2001;10109-10110.
43. Taylor L.C., Walt R. Applications of high density optical microwell arrays in a live-cell biosensing system. Anal Biochem. 278:2000;132-142.
44. Sundberg S.A. High-throughput and ultra-high-throughput screening: solution- and cell-based approaches. Curr Opin Biotechnol. 11:2000;47-53.
45. Daunert S., Barrett G., Feliciano J.S., Shetty R.S., Shrestha S., Smith-Spencer W. Genetically engineered whale-cell sensing systems: coupling biological recognition with reporter genes. Chem Rev. 100:2000;2705-2738. An excellent review of using genetic approaches to perform chemical sensing.
46. DeVito J.A., Mills J.A., Liu V.G., Agarwal A., Sizemore C.F., Yao Z., Stoughton D.M., Cappiello M.G., Barbosa M.D., Foster L.A., et al. An array of target-specific screening strains for antibacterial discovery. Nat Biotechnol. 20:2002;478-483.
47. Kohler S., Belkin S., Schmid R.D. Reporter gene bioassays in environmental analysis. J Anal Chem. 366:2000;769-779.
48. Walt D., Biran I. Biosensing with live cells using a high-density optical fiber array. Radiat Res. 156:2001;442-442.
49. Biran I., Walt D.R. Optical imaging fiber-based single live cell arrays: a high-density cell assay platform. Anal Chem. 74:2002;3046-3054.
50. Ross S.E., Seliskar C.J., Heineman W.R. Spectroelectrochemical sensing based on multimode selectivity simultaneously achievable in a single device. 9. Incorporation of planar waveguide technology. Anal Chem. 72:2000;5549-5555.
51. Szunerits S., Walt D.R. Fabrication of an optoelectrochemical microring array. Anal Chem. 7:2002;1718-1723.
52. Jin E.S., Norris B.J., Pantano P. An electrogenerated chemiluminescence imaging fiber electrode chemical sensor for NADH. Electroanalysis. 13:2001;1287-1290.
53. Danowski K.L., Pantano P. Evaluating the chemical spatial resolution of imaging fiber chemical sensors. Microchem J. 70:2001;51-61.
54. Bernhard D.D., Mall S., Pantano P. Fabrication and characterization of microwell array chemical sensors. Anal Chem. 73:2001;2484-2490.
55. Szunerits S., Walt D.R. Aluminum surface corrosion and the mechanism of inhibitors using pH and metal ion selective imaging fiber bundles. Anal Chem. 74:2002;886-894.
56. Khan S.S., Jin E.S., Sojic N., Pantano P. A fluorescence-based imaging-fiber electrode chemical sensor for hydrogen peroxide. Anal Chim Acta. 404:2000;213-221.