Stacked graphene-Al 2O 3 nanopore sensors for sensitive detection of DNA and DNA-protein complexes

ACS Nano

Volumn 6, Issue 1, 2012, Pages 441-450

  Venkatesan, Bala Murali ^a   Estrada, David ^a   Banerjee, Shouvik ^a   Jin, Xiaozhong ^a,b   Dorgan, Vincent E ^a   Bae, Myung Ho ^a   Aluru, Narayana R ^a,b   Pop, Eric ^a,b   Bashir, Rashid ^a,b  

^a University of Illinois at Urbana Champaign   (United States)

^b UNIVERSITY OF ILLINOIS AT URBANA CHAMPAIGN   (United States)

Author keywords

DNA; grapheme; nanopore; sequencing; translocation

Indexed keywords

BIOMOLECULE SENSING; BUFFER CAPACITY; DNA COMPLEX; DNA SEQUENCING; DNA-PROTEIN COMPLEXES; ELECTRICAL NOISE; GRAPHEME; HIGH TEMPORAL RESOLUTION; HIGHLY SENSITIVE; MEDICAL DIAGNOSTICS; MULTI-LAYERED; NANOGAPS; NANOLAMINATE; NANORIBBONS; PROOF OF PRINCIPLES; SCULPTING PROCESS; SENSITIVE DETECTION; SEQUENCING; SINGLE DNA MOLECULES; SINGLE-MOLECULE; TRANSLOCATION;

ALUMINUM; DNA; GRAPHENE; GRAPHITE ELECTRODES; NANOPORES;

GENE ENCODING;

ALUMINUM OXIDE; DNA; DNA BINDING PROTEIN; GRAPHITE; NANOMATERIAL;

ARTICLE; CHEMISTRY; CONDUCTOMETRY; EQUIPMENT; EQUIPMENT DESIGN; GENETIC PROCEDURES; INSTRUMENTATION; PARTICLE SIZE; POROSITY; ULTRASTRUCTURE;

ALUMINUM OXIDE; BIOSENSING TECHNIQUES; CONDUCTOMETRY; DNA; DNA-BINDING PROTEINS; EQUIPMENT DESIGN; EQUIPMENT FAILURE ANALYSIS; GRAPHITE; NANOSTRUCTURES; PARTICLE SIZE; POROSITY;

EID: 84856171546     PISSN: 19360851     EISSN: 1936086X     Source Type: Journal    
DOI: 10.1021/nn203769e     Document Type: Article

References (51)

1. Branton, D.; Deamer, D. W.; Marziali, A.; Bayley, H.; Benner, S. A.; Butler, T.; Di Ventra, M.; Garaj, S.; Hibbs, A.; Huang, X. et al. The Potential and Challenges of Nanopore Sequencing Nat. Biotechnol. 2008, 26, 1146-1153
2. Venkatesan, B. M.; Bashir, R. Nanopore Sensors for Nucleic Acid Analysis Nat. Nanotechnol. 2011, 6, 615-624
3. Geim, A. K. Graphene: Status and Prospects Science 2009, 324, 1530-1534
4. Garaj, S.; Hubbard, W.; Reina, A.; Kong, J.; Branton, D.; Golovchenko, J. A. Graphene as a Subnanometre Trans-Electrode Membrane Nature 2010, 467, 190-193
5. Merchant, C. A.; Healy, K.; Wanunu, M.; Ray, V.; Peterman, N.; Bartel, J.; Fischbein, M. D.; Venta, K.; Luo, Z. T.; Johnson, A. T. C. et al. DNA Translocation through Graphene Nanopores Nano Lett. 2010, 10, 2915-2921
6. Schneider, G. F.; Kowalczyk, S. W.; Calado, V. E.; Pandraud, G.; Zandbergen, H. W.; Vandersypen, L. M. K.; Dekker, C. DNA Translocation through Graphene Nanopores Nano Lett. 2010, 10, 3163-3167
7. Min, S. K.; Kim, W. Y.; Cho, Y.; Kim, K. S. Fast DNA Sequencing with a Graphene-Based Nanochannel Device Nat. Nanotechnol. 2011, 6, 162-165
8. Nelson, T.; Zhang, B.; Prezhdo, O. V. Detection of Nucleic Acids with Graphene Nanopores: Ab Initio Characterization of a Novel Sequencing Device Nano Lett. 2010, 10, 3237-3242
9. Postma, H. W. C. Rapid Sequencing of Individual DNA Molecules in Graphene Nanogaps Nano Lett. 2010, 10, 420-425
10. Prasongkit, J.; Grigoriev, A.; Pathak, B.; Ahuja, R.; Scheicher, R. H. Transverse Conductance of DNA Nucleotides in a Graphene Nanogap from First Principles Nano Lett. 2011, 11, 1941-1945
11. Valota, A. T.; Kinloch, I. A.; Novoselov, K. S.; Casiraghi, C.; Eckmann, A.; Hill, E. W.; Dryfe, R. A. W. Electrochemical Behavior of Monolayer and Bilayer Graphene. ACS Nano 2011.
12. Luan, B.; Peng, H.; Polonsky, S.; Rossnagel, S.; Stolovitzky, G.; Martyna, G. Base-by-Base Ratcheting of Single Stranded DNA Through a Solid-State Nanopore Phys. Rev. Lett. 2010, 104, 238103
13. Geim, A. K.; Novoselov, K. S. The Rise of Graphene Nat. Mater. 2007, 6, 183-191
14. Liao, A. D.; Wu, J. Z.; Wang, X.; Tahy, K.; Jena, D.; Dai, H.; Pop, E. Thermally Limited Current Carrying Ability of Graphene Nanoribbons Phys. Rev. Lett. 2011, 106, 256801
15. Zhi-mei, Q.; Shanhong, X.; Haoshen, Z. Slow Spontaneous Transformation of the Morphology of Ultrathin Gold Films Characterized by Localized Surface Plasmon Resonance Spectroscopy Nanotechnology 2009, 20, 255702
16. Durkan, C.; Welland, M. E. Analysis of Failure Mechanisms in Electrically Stressed Gold Nanowires Ultramicroscopy 2000, 82, 125-133
17. Girit, C. O.; Meyer, J. C.; Erni, R.; Rossell, M. D.; Kisielowski, C.; Yang, L.; Park, C.-H.; Crommie, M. F.; Cohen, M. L.; Louie, S. G. et al. Graphene at the Edge: Stability and Dynamics Science 2009, 323, 1705-1708
18. Zhijun, J.; Mirna, M.; Jason, C.; Derek, S. Fabrication of Nanopores with Embedded Annular Electrodes and Transverse Carbon Nanotube Electrodes J. Phys.: Condens. Matter 2010, 22, 454114
19. Bauer, W.; Sosin, A. Point Defect Studies in Gold by Electron Irradiation at Low Temperatures. I. Threshold Displacement Energy and Displacement Cross Section Phys. Rev. 1964, 135, A521-A526
20. Venkatesan, B. M.; Dorvel, B.; Yemenicioglu, S.; Watkins, N.; Petrov, I.; Bashir, R. Highly Sensitive, Mechanically Stable Nanopore Sensors for DNA Analysis Adv. Mater. 2009, 21, 2771-2776
21. 3 Nanopore Sensors: Towards a Hybrid Biological Solid-State Nanopore Biomed. Microdevices 2011, 13, 671-682
22. Dan, Y.; Lu, Y.; Kybert, N. J.; Luo, Z.; Johnson, A. T. C. Intrinsic Response of Graphene Vapor Sensors Nano Lett. 2009, 9, 1472-1475
23. Li, X.; Cai, W.; An, J.; Kim, S.; Nah, J.; Yang, D.; Piner, R.; Velamakanni, A.; Jung, I.; Tutuc, E. et al. Large-Area Synthesis of High-Quality and Uniform Graphene Films on Copper Foils Science 2009, 324, 1312-1314
24. Salehi-Khojin, A.; Estrada, D.; Lin, K. Y.; Bae, M. H.; Xiong, F.; Pop, E.; Masel, R. I., Polycrystalline Graphene Ribbons as Chemiresistors. Adv. Mater. 2011, advanced online publication, DOI: 10.1002/adma.201102663.
25. George, S. M. Atomic Layer Deposition: An Overview Chem. Rev. 2009, 110, 111-131
26. 3 Dielectric Appl. Phys. Lett. 2009, 94, 062107
27. Liao, L.; Lin, Y.-C.; Bao, M.; Cheng, R.; Bai, J.; Liu, Y.; Qu, Y.; Wang, K. L.; Huang, Y.; Duan, X. High-Speed Graphene Transistors with a Self-Aligned Nanowire Gate Nature 2010, 467, 305-308
28. Fu, W.; Nef, C.; Knopfmacher, O.; Tarasov, A.; Weiss, M.; Calame, M.; Schönenberger, C. Graphene Transistors Are Insensitive to pH Changes in Solution Nano Lett. 2011, 11, 3597-3600
29. 3 Nanopore Sensors Adv. Funct. Mater. 2010, 20, 1266-1275
30. Harrer, S.; Waggoner, P. S.; Luan, B.; Afzali-Ardakani, A.; Goldfarb, D. L.; Peng, H.; Martyna, G.; Rossnagel, S. M.; Stolovitzky, G. A. Electrochemical Protection of Thin Film Electrodes in Solid-State Nanopores Nanotechnology 2011, 22, 275304
31. Jiang, Z.; Stein, D. Charge Regulation in Nanopore Ionic Field-Effect Transistors Phys. Rev. E 2011, 83, 031203
32. Liu, Y.; Huber, D. E.; Tabard-Cossa, V.; Dutton, R. W. Descreening of Field Effect in Electrically Gated Nanopores Appl. Phys. Lett. 2010, 97, 143109-3
33. Nam, S.-W.; Rooks, M. J.; Kim, K.-B.; Rossnagel, S. M. Ionic Field Effect Transistors with Sub-10 nm Multiple Nanopores Nano Lett. 2009, 9, 2044-2048
34. Kim, R.-H.; Bae, M.-H.; Kim, D. G.; Cheng, H.; Kim, B. H.; Kim, D.-H.; Li, M.; Wu, J.; Du, F.; Kim, H.-S. et al. Stretchable, Transparent Graphene Interconnects for Arrays of Microscale Inorganic Light Emitting Diodes on Rubber Substrates Nano Lett. 2011, 11, 3881-3886
35. Smeets, R. M. M.; Keyser, U. F.; Krapf, D.; Wu, M.-Y.; Dekker, N. H.; Dekker, C. Salt Dependence of Ion Transport and DNA Translocation through Solid-State Nanopores Nano Lett. 2006, 6, 89-95
36. Wanunu, M.; Meller, A. Chemically Modified Solid-State Nanopores Nano Lett. 2007, 7, 1580-1585
37. Stein, D.; Kruithof, M.; Dekker, C. Surface-Charge-Governed Ion Transport in Nanofluidic Channels Phys. Rev. Lett. 2004, 93, 035901
38. Knopfmacher, O.; Tarasov, A.; Fu, W.; Wipf, M.; Niesen, B.; Calame, M.; Schönenberger, C. Nernst Limit in Dual-Gated Si-Nanowire FET Sensors Nano Lett. 2010, 10, 2268-2274
39. Kim, B. G.; Choi, S. K.; Chung, H. S. Dispersing Characteristics of Graphite Suspension by Surface Modification with ABDM Part. Sci. Technol. 2002, 20, 95-107
40. Kimoto, K.; Isakozawa, S.; Aoyama, T.; Matsui, Y. Spatially Resolved EELS Analysis of Multilayer Using EFTEM and STEM J. Electron Microsc. 2001, 50, 523-528
41. 2 Membrane with an Electron Beam Appl. Phys. Lett. 2005, 87, 113106-3
42. Wu, M. Y.; Smeets, R. M. M.; Zandbergen, M.; Ziese, U.; Krapf, D.; Batson, P. E.; Dekker, N. H.; Dekker, C.; Zandbergen, H. W. Control of Shape and Material Composition of Solid-State Nanopores Nano Lett. 2009, 9, 479-484
43. Rothberg, J. M.; Hinz, W.; Rearick, T. M.; Schultz, J.; Mileski, W.; Davey, M.; Leamon, J. H.; Johnson, K.; Milgrew, M. J.; Edwards, M. et al. An Integrated Semiconductor Device Enabling Non-Optical Genome Sequencing Nature 2011, 475, 348-352
44. Li, J.; Gershow, M.; Stein, D.; Brandin, E.; Golovchenko, J. A. DNA Molecules and Configurations in a Solid-State Nanopore Microscope Nat. Mater. 2003, 2, 611-615
45. Storm, A. J.; Storm, C.; Chen, J.; Zandbergen, H.; Joanny, J.-F.; Dekker, C. Fast DNA Translocation through a Solid-State Nanopore Nano Lett. 2005, 5, 1193-1197
46. Wanunu, M.; Sutin, J.; McNally, B.; Chow, A.; Meller, A. DNA Translocation Governed by Interactions with Solid-State Nanopores Biophys. J. 2008, 95, 4716-4725
47. Smeets, R. M. M.; Kowalczyk, S. W.; Hall, A. R.; Dekker, N. H.; Dekker, C. Translocation of RecA-Coated Double-Stranded DNA through Solid-State Nanopores Nano Lett. 2008, 9, 3089-3095
48. Kowalczyk, S. W.; Hall, A. R.; Dekker, C. Detection of Local Protein Structures along DNA Using Solid-State Nanopores Nano Lett. 2009, 10, 324-328
49. Wanunu, M.; Dadosh, T.; Ray, V.; Jin, J. M.; McReynolds, L.; Drndic, M. Rapid Electronic Detection of Probe-Specific MicroRNAs Using Thin Nanopore Sensors Nat. Nanotechnol. 2010, 5, 807-814
50. Wood, J. D.; Schmucker, S. W.; Lyons, A. S.; Pop, E.; Lyding, J. W. Effects of Polycrystalline Cu Substrate on Graphene Growth by Chemical Vapor Deposition Nano Lett. 2011, 11, 4547-4554
51. Jin, X.; Aluru, N. Gated Transport in Nanofluidic Devices Microfluid. Nanofluid. 2011, 11, 297-306