Signal-to-noise ratio enhancement of silicon nanowires biosensor with rolling circle amplification

Nano Letters

Volumn 13, Issue 9, 2013, Pages 4123-4130

  Gao, Anran ^a   Zou, Nengli ^a   Dai, Pengfei ^a   Lu, Na ^a   Li, Tie ^a   Wang, Yuelin ^a   Zhao, Jianlong ^a   Mao, Hongju ^a  

^a SHANGHAI INSTITUTE OF MICROSYSTEM AND INFORMATION TECHNOLOGY   (China)

Author keywords

biosensor; DNA detection; rolling circle amplification; SiNW FETs; ultrasensitive

Indexed keywords

COMPLEMENTARY METAL OXIDE SEMICONDUCTORS; DNA DETECTION; ROLLING CIRCLE AMPLIFICATIONS; SIGNAL-TO-NOISE RATIO ENHANCEMENT; SIGNALTONOISE RATIO (SNR); SILICON NANOWIRE FIELD-EFFECT TRANSISTORS; SINW-FETS; ULTRA SENSITIVES;

BIOSENSORS; DIAGNOSIS; DNA SEQUENCES; NANOWIRES; SIGNAL TO NOISE RATIO; VIRUSES;

DNA;

NANOWIRE; SILICON; SINGLE STRANDED DNA;

CHEMISTRY; DNA REPLICATION; GENETIC PROCEDURES; GENETICS; ISOLATION AND PURIFICATION; PROCEDURES; SIGNAL NOISE RATIO; VIRUS; ARTICLE; METHODOLOGY;

BIOSENSING TECHNIQUES; DNA REPLICATION; DNA, SINGLE-STRANDED; NANOWIRES; SIGNAL-TO-NOISE RATIO; SILICON; VIRUSES;

EID: 84884266380     PISSN: 15306984     EISSN: 15306992     Source Type: Journal    
DOI: 10.1021/nl401628y     Document Type: Article

References (59)

1. Risch, N.; Merikangas, K. The future of genetic studies of complex human diseases Science 1996, 273 (5281) 1516-1517
2. McCarthy, J. J.; Hilfiker, R. The use of single-nucleotide polymorphism maps in pharmacogenomics Nat. Biotechnol. 2000, 18 (5) 505-508
3. Bowtell, D. D. L. Options available-from start to finish-for obtaining expression data by microarray Nat. Genet. 1999, 21, 25-32
4. Schena, M.; Shalon, D.; Davis, R. W.; Brown, P. O. Quantitative Monitoring of Gene-Expression Patterns with a Complementary-DNA Microarray Science 1995, 270 (5235) 467-470
5. Janasek, D.; Franzke, J.; Manz, A. Scaling and the design of miniaturized chemical-analysis systems Nature 2006, 442 (7101) 374-380
6. Nakamura, Y. The role of genetic diagnosis in clinics - from the choice of ordering until reading the data. Rinsho byori Jpn. J. Clin. Pathol. 1999, 47 (11) 1006
7. Burgess, D. C. H.; Wasserman, J.; Dahl, C. A. Global health diagnostics Nature 2006, 444, 1-2
8. Dawson, E. D.; Moore, C. L.; Dankbar, D. M.; Mehlmann, M.; Townsend, M. B.; Smagala, J. A.; Smith, C. B.; Cox, N. J.; Kuchta, R. D.; Rowlen, K. L. Identification of A/H5N1 Influenza Viruses Using a Single Gene Diagnostic Microarray Anal. Chem. 2007, 79 (1) 378-384
9. Mao, H. L.; Wang, H. M.; Zhang, D. L.; Mao, H. J.; Zhao, J. L.; Shi, J.; Cui, Z. C. Study of hepatitis B virus gene mutations with enzymatic colorimetry-based DNA microarray Clin. Biochem. 2006, 39 (1) 67-73
10. Cha, B. H.; Lee, S. M.; Park, J. C.; Hwang, K. S.; Kim, S. K.; Lee, Y. S.; Ju, B. K.; Kim, T. S. Detection of Hepatitis B Virus (HBV) DNA at femtomolar concentrations using a silica nanoparticle-enhanced microcantilever sensor Biosens. Bioelectron. 2009, 25 (1) 130-135
11. Mirkin, C. A.; Letsinger, R. L.; Mucic, R. C.; Storhoff, J. J. A DNA-based method for rationally assembling nanoparticles into macroscopic materials Nature 1996, 382 (6592) 607-609
12. Wu, G. H.; Datar, R. H.; Hansen, K. M.; Thundat, T.; Cote, R. J.; Majumdar, A. Bioassay of prostate-specific antigen (PSA) using microcantilevers Nat. Biotechnol. 2001, 19 (9) 856-860
13. Chen, R. J.; Choi, H. C.; Bangsaruntip, S.; Yenilmez, E.; Tang, X. W.; Wang, Q.; Chang, Y. L.; Dai, H. J. An Investigation of the Mechanisms of Electronic Sensing of Protein Adsorption on Carbon Nanotube Devices J. Am. Chem. Soc. 2004, 126 (5) 1563-1568
14. Zheng, G. F.; Patolsky, F.; Cui, Y.; Wang, W. U.; Lieber, C. M. Multiplexed electrical detection of cancer markers with nanowire sensor arrays Nat. Biotechnol. 2005, 23 (10) 1294-1301
15. Stern, E.; Klemic, J. F.; Routenberg, D. A.; Wyrembak, P. N.; Turner-Evans, D. B.; Hamilton, A. D.; LaVan, D. A.; Fahmy, T. M.; Reed, M. A. Label-free immunodetection with CMOS-compatible semiconducting nanowires Nature 2007, 445 (7127) 519-522
16. Patolsky, F.; Zheng, G. F.; Hayden, O.; Lakadamyali, M.; Zhuang, X. W.; Lieber, C. M. Electrical detection of single viruses Proc. Natl. Acad. Sci. U.S.A. 2004, 101 (39) 14017-14022
17. Patolsky, F.; Zheng, G. F.; Lieber, C. M. Nanowire-Based Biosensors Anal. Chem. 2006, 78 (13) 4260-4269
18. Wang, W. U.; Chen, C.; Lin, K. H.; Fang, Y.; Lieber, C. M. Label-free detection of small-molecule-protein interactions by using nanowire nanosensors Proc. Natl. Acad. Sci. U.S.A. 2005, 102 (9) 3208-3212
19. Weissman, M. B. 1/F Noise and Other Slow, Nonexponential Kinetics in Condensed Matter Rev. Mod. Phys. 1988, 60 (2) 537-571
20. Zheng, G. F.; Gao, X. P. A.; Lieber, C. M. Frequency Domain Detection of Biomolecules Using Silicon Nanowire Biosensors Nano Lett. 2010, 10 (8) 3179-3183
21. Gao, X. P. A.; Zheng, G. F.; Lieber, C. M. Subthreshold Regime has the Optimal Sensitivity for Nanowire FET Biosensors Nano Lett. 2010, 10 (2) 547-552
22. Im, Y.; Lee, C.; Vasquez, R. P.; Bangar, M. A.; Myung, N. V.; Menke, E. J.; Penner, R. M.; Yun, M. H. Investigation of a single Pd nanowire for use as a hydrogen sensor Small 2006, 2 (3) 356-358
23. Hassibi, A.; Zahedi, S.; Navid, R.; Dutton, R. W.; Lee, T. H. Biological shot-noise and quantum-limited signal-to-noise ratio in affinity-based biosensors J. Appl. Phys. 2005, 97 (8) 084701-084701-10
24. Cui, Y.; Wei, Q. Q.; Park, H. K.; Lieber, C. M. Nanowire nanosensors for highly sensitive and selective detection of biological and chemical species Science 2001, 293 (5533) 1289-1292
25. Soleymani, L.; Fang, Z. C.; Sargent, E. H.; Kelley, S. O. Programming the detection limits of biosensors through controlled nanostructuring Nat. Nanotechnol. 2009, 4 (12) 844-848
26. Patolsky, F.; Lichtenstein, A.; Willner, I. Detection of Single-Base DNA Mutations by Enzyme-Amplified Electronic Transduction Nat. Biotechnol. 2001, 19, 253-257
27. Polsky, R.; Gill, R.; Kaganovsky, L.; Willner, I. Nucleic Acid-Functionalized Pt Nanoparticles: A Catalytic Label for the Amplified Electrochemical Detection of Biomolecules Anal. Chem. 2006, 78, 2268-2271
28. Li, D.; Yan, Y.; Wieckowska, A.; Willner, I. Amplified Electrochemical Detection of DNA through the Aggregation of Au Nanoparticles on Electrodes and the Incorporation of Methylene Blue into the DNA-Crosslinked Structure Chem. Commun. 2007, 3544-3546
29. Weizmann, Y.; Patolsky, F.; Katz, E.; Willner, I. Amplified DNA Sensing and Immunosensing by the Rotation of Functional Magnetic Particles J. Am. Chem. Soc. 2003, 125, 3452-3454
30. Edwards, M. C.; Gibbs, R. A. Multiplex PCR-Advantages, Development, and Applications PCR Methods Appl. 1994, 3 (4) S65-S75
31. Phillips, J.; Eberwine, J. H.; Antisense, R. N. A. amplification: a linear amplification method for analyzing the mRNA population from single living cells Methods 1996, 10 (3) 283-288
32. Stromberg, M.; Goransson, J.; Gunnarsson, K.; Nilsson, M.; Svedlindh, P.; Stromme, M. Sensitive Molecular Diagnostics Using Volume-Amplified Magnetic Nanobeads Nano Lett. 2008, 8 (3) 816-821
33. Zhao, W.; Ali, M. M.; Brook, M. A.; Li, Y. Rolling circle amplification: applications in nanotechnology and biodetection with functional nucleic acids Angew. Chem., Int. Ed. 2008, 47 (34) 6330-6337
34. Korny, T.; Hayman, R. B.; Walt, D. R. Microsphere-based rolling circle amplification microarray for the detection of DNA and proteins in a single assay Anal. Chem. 2009, 81, 5777-5782
35. Zhou, L.; Ou, L. J.; Chu, X.; Shen, G. L.; Yu, R. Q. Aptamer-Based Rolling Circle Amplification: A Platform for Electrochemical Detection of Protein Anal. Chem. 2007, 79, 7492-7500
36. Zhang, S. B.; Wu, Z. S.; Shen, G. L.; Yu, R. Q. A label-free strategy for SNP detection with high fidelity and sensitivity based on ligation-rolling circle amplification and intercalating of methylene blue Biosens. Bioelectron 2009, 24, 3201-3207
37. Cheng, Y. Q.; Zhang, X.; Li, Z. P.; Jiao, X. X.; Wang, Y. C.; Zhang, Y. L. Highly Sensitive Determination of microRNA Using Target-Primed and Branched Rolling-Circle Amplification Angew. Chem., Int. Ed. 2009, 48, 3268-3272
38. Pui, T. S.; Agarwal, A.; Ye, F.; Balasubramanian, N.; Chen, P. CMOS-Compatible Nanowire Sensor Arrays for Detection of Cellular Bioelectricity Small 2009, 5 (2) 208-212
39. Li, Z.; Zhang, Y.; Fullhart, P.; Mirkin, C. A. Reversible and Chemically Programmable Micelle Assembly with DNA Block-Copolymer Amphiphiles Nano Lett. 2004, 4 (6) 1055-1058
40. Gao, A.; Lu, N.; Wang, Y.; Dai, P.; Li, T.; Gao, X.; Wang, Y.; Fan, C. Enhanced Sensing of Nucleic Acids with Silicon Nanowire Field Effect Transistor Biosensors Nano Lett. 2012, 12 (10) 5262-5268
41. Gao, A. R.; Lu, N.; Dai, P. F.; Li, T.; Pei, H.; Gao, X. L.; Gong, Y. B.; Wang, Y. L.; Fan, C. H. Silicon-Nanowire-Based CMOS-Compatible Field-Effect Transistor Nanosensors for Ultrasensitive Electrical Detection of Nucleic Acids Nano Lett. 2011, 11 (9) 3974-3978
42. Grydlik, M.; Brehm, M.; Hackl, F.; Groiss, H.; Fromherz, T.; Schäffler, F.; Bauer, G. Inverted Ge islands in {111} faceted Si pits-a novel approach towards SiGe islands with higher aspect ratio New J. Phys. 2010, 12 (6) 063002
43. Sievila, P.; Chekurov, N.; Tittonen, I. The fabrication of silicon nanostructures by focused-ion-beam implantation and TMAH wet etching Nanotechnology 2010, 21, 14
44. Stern, E.; Wagner, R.; Sigworth, F. J.; Breaker, R.; Fahmy, T. M.; Reed, M. A. Importance of the Debye Screening Length on Nanowire Field Effect Transistor Sensors Nano Lett. 2007, 7 (11) 3405-3409
45. Li, J.; Zhong, W. Typing of Multiple Single-Nucleotide Polymorphisms by a Microsphere-Based Rolling Circle Amplification Assay Anal. Chem. 2007, 79 (23) 9030-9038
46. Hahm, J.-i.; Lieber, C. M. Direct Ultrasensitive Electrical Detection of DNA and DNA Sequence Variations Using Nanowire Nanosensors Nano Lett 2004, 4 (1) 51-54
47. Bergveld, P. Development, operation, and application of the ion-sensitive field-effect transistor as a tool for electrophysiology IEEE Trans. Biomed. Eng. 1972, 5, 342-351
48. Turner, A. P.; Karube, I.; Wilson, G. S. Biosensors: Fundamentals and Applications; Oxford University Press: Oxford, 1987; p 21.
49. Lin, Y. M.; Appenzeller, J.; Chen, Z. H.; Avouris, P. Electrical transport and 1/f noise in semiconducting carbon nanotubes Physica E 2007, 37 (1-2) 72-77
50. Voelker, M.; Fromherz, P. Signal transmission from individual mammalian nerve cell to field-effect transistor Small 2005, 1 (2) 206-210
51. Ghibaudo, G.; Roux, O.; Nguyenduc, C.; Balestra, F.; Brini, J. Improved Analysis of Low-Frequency Noise in Field-Effect Mos-Transistors Phys. Status Solidi A 1991, 124 (2) 571-581
52. Jayaraman, R.; Sodini, C. G. A 1/F Noise Technique to Extract the Oxide Trap Density near the Conduction-Band Edge of Silicon IEEE Trans. Electron Devices 1989, 36 (9) 1773-1782
53. Rajan, N. K.; Routenberg, D. A.; Reed, M. A. Optimal signal-to-noise ratio for silicon nanowire biochemical sensors Appl. Phys. Lett. 2011, 98, 264107
54. Kim, S.; Rim, T.; Kim, K.; Lee, U.; Baek, E.; Lee, H.; Baek, C. K.; Meyyappan, M.; Deen, M. J.; Lee, J. S. Silicon nanowire ion sensitive field effect transistor with integrated Ag/AgCl electrode: pH sensing and noise characteristics Analyst 2011, 136 (23) 5012-5016
55. Clément, N.; Nishiguchi, K.; Dufreche, J.; Guerin, D.; Fujiwara, A.; Vuillaume, D. A silicon nanowire ion-sensitive field-effect transistor with elementary charge sensitivity Appl. Phys. Lett. 2011, 98 (1) 014104-014104-3
56. Agarwal, A.; Buddharaju, K.; Lao, I. K.; Singh, N.; Balasubramanian, N.; Kwong, D. L. Silicon nanowire sensor array using top-down CMOS technology Sens. Actuators, A 2008, 145, 207-213
57. Sorensen, M. H.; Mortensen, N. A.; Brandbyge, M. Screening model for nanowire surface-charge sensors in liquid Appl. Phys. Lett. 2007, 91, 102105
58. De Vico, L.; Sorensen, M. H.; Iversen, L.; Rogers, D. M.; Sorensen, B. S.; Brandbyge, M.; Nygard, J.; Martinez, K. L.; Jensen, J. H. Quantifying signal changes in nano-wire based biosensors Nanoscale 2011, 3 (2) 706-717
59. Kao, L. T.-H.; Shankar, L.; Kang, T. G.; Zhang, G.; Tay, G. K. I.; Rafei, S. R. M.; Lee, C. W. H. Multiplexed detection and differentiation of the DNA strains for influenza A (H1N1 2009) using a silicon-based microfluidic system Biosens. Bioelectron. 2011, 26 (5) 2006-2011