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Volumn 444, Issue 1, 2014, Pages 41-46

Strategies for optimizing DNA hybridization on surfaces

Author keywords

Nucleic acid hybridization; Solid phase hybridization; Solution phase hybridization

Indexed keywords

NUCLEIC ACID SEQUENCES; OLIGONUCLEOTIDES;

EID: 84886742179     PISSN: 00032697     EISSN: 10960309     Source Type: Journal    
DOI: 10.1016/j.ab.2013.09.032     Document Type: Review
Times cited : (75)

References (55)
  • 2
    • 81255175663 scopus 로고    scopus 로고
    • Kinetics and dynamics of DNA hybridization
    • Y. Yin, and X.S. Zhao Kinetics and dynamics of DNA hybridization Acc. Chem. Res. 44 2011 1172 1181
    • (2011) Acc. Chem. Res. , vol.44 , pp. 1172-1181
    • Yin, Y.1    Zhao, X.S.2
  • 3
    • 84863116178 scopus 로고    scopus 로고
    • Optimizing the specificity of nucleic acid hybridization
    • D.Y. Zhang, S.X. Chen, and P. Yin Optimizing the specificity of nucleic acid hybridization Nat. Chem. 4 2012 208 214
    • (2012) Nat. Chem. , vol.4 , pp. 208-214
    • Zhang, D.Y.1    Chen, S.X.2    Yin, P.3
  • 4
    • 13944271437 scopus 로고    scopus 로고
    • Physicochemical perspectives on DNA microarray and biosensor technologies
    • DOI 10.1016/j.tibtech.2005.01.004, PII S0167779905000260
    • R. Levicky, and A. Horgan Physicochemical perspectives on DNA microarray and biosensor technologies Trends Biotechnol. 23 2005 143 149 (Pubitemid 40269847)
    • (2005) Trends in Biotechnology , vol.23 , Issue.3 , pp. 143-149
    • Levicky, R.1    Horgan, A.2
  • 5
    • 0034663496 scopus 로고    scopus 로고
    • From DNA biosensors to gene chips
    • J. Wang Survey and summary from DNA biosensors to gene chips Nucleic Acids Res. 28 2000 3011 3016 (Pubitemid 30624089)
    • (2000) Nucleic Acids Research , vol.28 , Issue.16 , pp. 3011-3016
    • Wang, J.1
  • 8
    • 2342545547 scopus 로고    scopus 로고
    • Fluorescence in situ hybridization
    • Springer New York
    • J.M. Bartlett Fluorescence in situ hybridization Molecular Diagnosis of Cancer 2004 Springer New York 77 87
    • (2004) Molecular Diagnosis of Cancer , pp. 77-87
    • Bartlett, J.M.1
  • 10
    • 79958080423 scopus 로고    scopus 로고
    • Thermodynamics of DNA hybridization on surfaces
    • T.J. Schmitt, and T.A. Knotts Thermodynamics of DNA hybridization on surfaces J. Chem. Phys. 134 2011 205105
    • (2011) J. Chem. Phys. , vol.134 , pp. 205105
    • Schmitt, T.J.1    Knotts, T.A.2
  • 11
    • 23144442980 scopus 로고    scopus 로고
    • DNA recognition interfaces: The influence of interfacial design on the efficiency and kinetics of hybridization
    • DOI 10.1021/la050725m
    • E.L. Wong, E. Chow, and J.J. Gooding DNA recognition interfaces: the influence of interfacial design on the efficiency and kinetics of hybridization Langmuir 21 2005 6957 6965 (Pubitemid 41084484)
    • (2005) Langmuir , vol.21 , Issue.15 , pp. 6957-6965
    • Wong, E.L.S.1    Chow, E.2    Gooding, J.J.3
  • 13
    • 77953156601 scopus 로고    scopus 로고
    • DNA surface hybridization: Comparison of theory and experiment
    • D. Irving, P. Gong, and R. Levicky DNA surface hybridization: comparison of theory and experiment J. Phys. Chem. B 114 2010 7631 7640
    • (2010) J. Phys. Chem. B , vol.114 , pp. 7631-7640
    • Irving, D.1    Gong, P.2    Levicky, R.3
  • 15
    • 36549073931 scopus 로고    scopus 로고
    • Building an in silico laboratory for genomic assay design
    • R.D. Royce, J. SantaLucia Jr., and D.A. Hicks Building an in silico laboratory for genomic assay design Pharm. Visions 2003 10 12
    • (2003) Pharm. Visions , pp. 10-12
    • Royce, R.D.1    Santalucia, Jr.J.2    Hicks, D.A.3
  • 17
    • 67349115983 scopus 로고    scopus 로고
    • The physicochemical aspects of DNA sensing using electrochemical methods
    • C. Batchelor-McAuley, G.G. Wildgoose, and R.G. Compton The physicochemical aspects of DNA sensing using electrochemical methods Biosens. Bioelectron. 24 2009 3183 3190
    • (2009) Biosens. Bioelectron. , vol.24 , pp. 3183-3190
    • Batchelor-Mcauley, C.1    Wildgoose, G.G.2    Compton, R.G.3
  • 18
    • 33646182577 scopus 로고    scopus 로고
    • Thermodynamics of competitive surface adsorption on DNA microarrays
    • H. Binder Thermodynamics of competitive surface adsorption on DNA microarrays J. Phys.: Condens. Matter 18 2006 S491
    • (2006) J. Phys.: Condens. Matter , vol.18 , pp. 491
    • Binder, H.1
  • 19
    • 53349172180 scopus 로고    scopus 로고
    • Nucleotide-surface interactions in DNA-modified Au-nanoparticle conjugates: Sequence effects on reactivity and hybridization
    • K.A. Brown, S. Park, and K. Hamad-Schifferli Nucleotide-surface interactions in DNA-modified Au-nanoparticle conjugates: sequence effects on reactivity and hybridization J. Phys. Chem. C 112 2008 7517 7521
    • (2008) J. Phys. Chem. C , vol.112 , pp. 7517-7521
    • Brown, K.A.1    Park, S.2    Hamad-Schifferli, K.3
  • 20
    • 0035945270 scopus 로고    scopus 로고
    • The effect of surface probe density on DNA hybridization
    • A.W. Peterson, R.J. Heaton, and R.M. Georgiadis The effect of surface probe density on DNA hybridization Nucleic Acids Res. 29 2001 5163 5168 (Pubitemid 34065435)
    • (2001) Nucleic Acids Research , vol.29 , Issue.24 , pp. 5163-5168
    • Peterson, A.W.1    Heaton, R.J.2    Georgiadis, R.M.3
  • 21
    • 0037210349 scopus 로고    scopus 로고
    • Electric potential control of DNA immobilization on gold electrode
    • DOI 10.1016/S0956-5663(02)00115-X, PII S095656630200115X
    • C. Ge, J. Liao, W. Yu, and N. Gu Electric potential control of DNA immobilization on gold electrode Biosens. Bioelectron. 18 2003 53 58 (Pubitemid 35356493)
    • (2003) Biosensors and Bioelectronics , vol.18 , Issue.1 , pp. 53-58
    • Ge, C.1    Liao, J.2    Yu, W.3    Gu, N.4
  • 22
    • 77953608427 scopus 로고    scopus 로고
    • An electrostatic model for DNA surface hybridization
    • I.Y. Wong, and N.A. Melosh An electrostatic model for DNA surface hybridization Biophys. J. 98 2010 2954 2963
    • (2010) Biophys. J. , vol.98 , pp. 2954-2963
    • Wong, I.Y.1    Melosh, N.A.2
  • 23
    • 67649872011 scopus 로고    scopus 로고
    • Kinetics and thermodynamics of DNA hybridization on gold nanoparticles
    • C. Chen, W. Wang, J. Ge, and X.S. Zhao Kinetics and thermodynamics of DNA hybridization on gold nanoparticles Nucleic Acids Res. 37 2009 3756 3765
    • (2009) Nucleic Acids Res. , vol.37 , pp. 3756-3765
    • Chen, C.1    Wang, W.2    Ge, J.3    Zhao, X.S.4
  • 24
    • 33646172937 scopus 로고    scopus 로고
    • On the hybridization isotherms of DNA microarrays: The Langmuir model and its extensions
    • A. Halperin, A. Buhot, and E. Zhulina On the hybridization isotherms of DNA microarrays: the Langmuir model and its extensions J. Phys. Condens. Matter 18 2006 S463
    • (2006) J. Phys. Condens. Matter , vol.18 , pp. 463
    • Halperin, A.1    Buhot, A.2    Zhulina, E.3
  • 25
    • 63449121623 scopus 로고    scopus 로고
    • Curvature effects in DNA: Au nanoparticle conjugates
    • K.B. Cederquist, and C.D. Keating Curvature effects in DNA: Au nanoparticle conjugates ACS Nano 3 2009 256 260
    • (2009) ACS Nano , vol.3 , pp. 256-260
    • Cederquist, K.B.1    Keating, C.D.2
  • 26
    • 0037319670 scopus 로고    scopus 로고
    • Surface electrostatic effects in oligonucleotide microarrays: Control and optimization of binding thermodynamics
    • DOI 10.1002/bip.10271
    • A. Vainrub, and B. Montgomery Pettitt Surface electrostatic effects in oligonucleotide microarrays: control and optimization of binding thermodynamics Biopolymers 68 2003 265 270 (Pubitemid 36222404)
    • (2003) Biopolymers , vol.68 , Issue.2 , pp. 265-270
    • Vainrub, A.1    Pettitt, B.M.2
  • 27
    • 72849122589 scopus 로고    scopus 로고
    • Directed hybridization and melting of DNA linkers using counterion-screened electric fields
    • I.Y. Wong, and N.A. Melosh Directed hybridization and melting of DNA linkers using counterion-screened electric fields Nano Lett. 9 2009 3521 3526
    • (2009) Nano Lett. , vol.9 , pp. 3521-3526
    • Wong, I.Y.1    Melosh, N.A.2
  • 29
    • 23244444650 scopus 로고    scopus 로고
    • Brush effects on DNA chips: Thermodynamics, kinetics, and design guidelines
    • DOI 10.1529/biophysj.105.063479
    • A. Halperin, A. Buhot, and E. Zhulina Brush effects on DNA chips: thermodynamics, kinetics, and design guidelines Biophys. J. 89 2005 796 811 (Pubitemid 41098967)
    • (2005) Biophysical Journal , vol.89 , Issue.2 , pp. 796-811
    • Halperin, A.1    Buhot, A.2    Zhulina, E.B.3
  • 30
    • 84859910629 scopus 로고    scopus 로고
    • Optimization of DNA hybridization efficiency by pH-driven nanomechanical bending
    • J. Zhang, H.P. Lang, G. Yoshikawa, and C. Gerber Optimization of DNA hybridization efficiency by pH-driven nanomechanical bending Langmuir 28 2012 6494 6501
    • (2012) Langmuir , vol.28 , pp. 6494-6501
    • Zhang, J.1    Lang, H.P.2    Yoshikawa, G.3    Gerber, C.4
  • 32
    • 0036749178 scopus 로고    scopus 로고
    • Electrochemical DNA hybridization biosensors
    • J.J. Gooding Electrochemical DNA hybridization biosensors Electroanalysis 14 2002 1149 1156
    • (2002) Electroanalysis , vol.14 , pp. 1149-1156
    • Gooding, J.J.1
  • 33
    • 84862504546 scopus 로고    scopus 로고
    • Development and evaluation of a loop-mediated isothermal amplification method in conjunction with an enzyme-linked immunosorbent assay for specific detection of Salmonella serogroup D
    • H. Ravan, and R. Yazdanparast Development and evaluation of a loop-mediated isothermal amplification method in conjunction with an enzyme-linked immunosorbent assay for specific detection of Salmonella serogroup D Anal. Chim. Acta 733 2012 64 70
    • (2012) Anal. Chim. Acta , vol.733 , pp. 64-70
    • Ravan, H.1    Yazdanparast, R.2
  • 34
    • 84879234620 scopus 로고    scopus 로고
    • Loop region-specific oligonucleotide probes for loop-mediated isothermal amplification - Enzyme-linked immunosorbent assay truly minimize the instrument needed for detection process
    • H. Ravan, and R. Yazdanparast Loop region-specific oligonucleotide probes for loop-mediated isothermal amplification - enzyme-linked immunosorbent assay truly minimize the instrument needed for detection process Anal. Biochem. 439 2013 102 108
    • (2013) Anal. Biochem. , vol.439 , pp. 102-108
    • Ravan, H.1    Yazdanparast, R.2
  • 35
    • 70349531272 scopus 로고    scopus 로고
    • Nucleic acid conjugated nanomaterials for enhanced molecular recognition
    • H. Wang, R. Yang, L. Yang, and W. Tan Nucleic acid conjugated nanomaterials for enhanced molecular recognition ACS Nano 3 2009 2451 2460
    • (2009) ACS Nano , vol.3 , pp. 2451-2460
    • Wang, H.1    Yang, R.2    Yang, L.3    Tan, W.4
  • 37
    • 25444450344 scopus 로고    scopus 로고
    • Thermodynamics of DNA hybridization on gold nanoparticles
    • DOI 10.1021/ja052352h
    • J. Xu, and S.L. Craig Thermodynamics of DNA hybridization on gold nanoparticles J. Am. Chem. Soc. 127 2005 13227 13231 (Pubitemid 41377614)
    • (2005) Journal of the American Chemical Society , vol.127 , Issue.38 , pp. 13227-13231
    • Xu, J.1    Craig, S.L.2
  • 38
    • 0034669474 scopus 로고    scopus 로고
    • A fluorescence-based method for determining the surface coverage and hybridization efficiency of thiol-capped oligonucleotides bound to gold thin films and nanoparticles
    • L.M. Demers, C.A. Mirkin, R.C. Mucic, R.A. Reynolds, R.L. Letsinger, R. Elghanian, and G. Viswanadham A fluorescence-based method for determining the surface coverage and hybridization efficiency of thiol-capped oligonucleotides bound to gold thin films and nanoparticles Anal. Chem. 72 2000 5535 5541
    • (2000) Anal. Chem. , vol.72 , pp. 5535-5541
    • Demers, L.M.1    Mirkin, C.A.2    Mucic, R.C.3    Reynolds, R.A.4    Letsinger, R.L.5    Elghanian, R.6    Viswanadham, G.7
  • 39
    • 63449092563 scopus 로고    scopus 로고
    • The role radius of curvature plays in thiolated oligonucleotide loading on gold nanoparticles
    • H.D. Hill, J.E. Millstone, M.J. Banholzer, and C.A. Mirkin The role radius of curvature plays in thiolated oligonucleotide loading on gold nanoparticles ACS Nano 3 2009 418 424
    • (2009) ACS Nano , vol.3 , pp. 418-424
    • Hill, H.D.1    Millstone, J.E.2    Banholzer, M.J.3    Mirkin, C.A.4
  • 40
    • 84864242526 scopus 로고    scopus 로고
    • Designed diblock oligonucleotide for the synthesis of spatially isolated and highly hybridizable functionalization of DNA-gold nanoparticle nanoconjugates
    • H. Pei, F. Li, Y. Wan, M. Wei, H. Liu, Y. Su, N. Chen, Q. Huang, and C. Fan Designed diblock oligonucleotide for the synthesis of spatially isolated and highly hybridizable functionalization of DNA-gold nanoparticle nanoconjugates J. Am. Chem. Soc. 134 2012 11876 11879
    • (2012) J. Am. Chem. Soc. , vol.134 , pp. 11876-11879
    • Pei, H.1    Li, F.2    Wan, Y.3    Wei, M.4    Liu, H.5    Su, Y.6    Chen, N.7    Huang, Q.8    Fan, C.9
  • 41
    • 0037433244 scopus 로고    scopus 로고
    • What controls the melting properties of DNA-linked gold nanoparticle assemblies?
    • DOI 10.1021/ja021096v
    • R. Jin, G. Wu, Z. Li, C.A. Mirkin, and G.C. Schatz What controls the melting properties of DNA-linked gold nanoparticle assemblies? J. Am. Chem. Soc. 125 2003 1643 1654 (Pubitemid 36206246)
    • (2003) Journal of the American Chemical Society , vol.125 , Issue.6 , pp. 1643-1654
    • Jin, R.1    Wu, G.2    Li, Z.3    Mirkin, C.A.4    Schatz, G.C.5
  • 42
    • 0030862620 scopus 로고    scopus 로고
    • Steric factors influencing hybridisation of nucleic acids to oligonucleotide arrays
    • DOI 10.1093/nar/25.6.1155
    • M. Shchepinov, S. Case-Green, and E. Southern Steric factors influencing hybridisation of nucleic acids to oligonucleotide arrays Nucleic Acids Res. 25 1997 1155 1161 (Pubitemid 27303206)
    • (1997) Nucleic Acids Research , vol.25 , Issue.6 , pp. 1155-1161
    • Shchepinov, M.S.1    Case-Green, S.C.2    Southern, E.M.3
  • 43
    • 84876565359 scopus 로고    scopus 로고
    • Efficient self-assembly of DNA-functionalized fluorophores and gold nanoparticles with DNA functionalized silicon surfaces: The effect of oligomer spacers
    • J.A. Milton, S. Patole, H. Yin, Q. Xiao, T. Brown, and T. Melvin Efficient self-assembly of DNA-functionalized fluorophores and gold nanoparticles with DNA functionalized silicon surfaces: the effect of oligomer spacers Nucleic Acids Res. 41 2013 e80
    • (2013) Nucleic Acids Res. , vol.41 , pp. 80
    • Milton, J.A.1    Patole, S.2    Yin, H.3    Xiao, Q.4    Brown, T.5    Melvin, T.6
  • 44
    • 33845573598 scopus 로고    scopus 로고
    • Maximizing DNA loading on a range of gold nanoparticle sizes
    • DOI 10.1021/ac0613582
    • S.J. Hurst, A.K. Lytton-Jean, and C.A. Mirkin Maximizing DNA loading on a range of gold nanoparticle sizes Anal. Chem. 78 2006 8313 8318 (Pubitemid 44932099)
    • (2006) Analytical Chemistry , vol.78 , Issue.24 , pp. 8313-8318
    • Hurst, S.J.1    Lytton-Jean, A.K.R.2    Mirkin, C.A.3
  • 45
    • 4344704162 scopus 로고    scopus 로고
    • The structural characterization of oligonucleotide-modified gold nanoparticle networks formed by DNA hybridization
    • S.-J. Park, A.A. Lazarides, J.J. Storhoff, L. Pesce, and C.A. Mirkin The structural characterization of oligonucleotide-modified gold nanoparticle networks formed by DNA hybridization J. Phys. Chem. B 108 2004 12375 12380
    • (2004) J. Phys. Chem. B , vol.108 , pp. 12375-12380
    • Park, S.-J.1    Lazarides, A.A.2    Storhoff, J.J.3    Pesce, L.4    Mirkin, C.A.5
  • 46
    • 84867458474 scopus 로고    scopus 로고
    • Effects of polyethylene glycol on DNA adsorption and hybridization on gold nanoparticles and graphene oxide
    • X. Zhang, P.-J.J. Huang, M.R. Servos, and J. Liu Effects of polyethylene glycol on DNA adsorption and hybridization on gold nanoparticles and graphene oxide Langmuir 28 2012 14330 14337
    • (2012) Langmuir , vol.28 , pp. 14330-14337
    • Zhang, X.1    Huang, P.-J.J.2    Servos, M.R.3    Liu, J.4
  • 47
    • 10744219790 scopus 로고    scopus 로고
    • Influence of the thiol position on the attachment and subsequent hybridization of thiolated DNA on gold surfaces
    • R. Wirtz, C. Walti, P. Tosch, M. Pepper, A. Davies, W. Germishuizen, and A. Middelberg Influence of the thiol position on the attachment and subsequent hybridization of thiolated DNA on gold surfaces Langmuir 20 2004 1527 1530
    • (2004) Langmuir , vol.20 , pp. 1527-1530
    • Wirtz, R.1    Walti, C.2    Tosch, P.3    Pepper, M.4    Davies, A.5    Germishuizen, W.6    Middelberg, A.7
  • 49
    • 77950412604 scopus 로고    scopus 로고
    • Controlled and efficient hybridization achieved with DNA probes immobilized solely through preferential DNA-substrate interactions
    • S.M. Schreiner, D.F. Shudy, A.L. Hatch, A. Opdahl, L.J. Whitman, and D.Y. Petrovykh Controlled and efficient hybridization achieved with DNA probes immobilized solely through preferential DNA-substrate interactions Anal. Chem. 82 2010 2803 2810
    • (2010) Anal. Chem. , vol.82 , pp. 2803-2810
    • Schreiner, S.M.1    Shudy, D.F.2    Hatch, A.L.3    Opdahl, A.4    Whitman, L.J.5    Petrovykh, D.Y.6
  • 51
    • 0035250210 scopus 로고    scopus 로고
    • DNA-directed assembly of gold nanowires on complementary surfaces
    • DOI 10.1002/1521-4095(200102)13:4<249::AID-ADMA249>3.0.CO;2-9
    • J.K. Mbindyo, B.D. Reiss, B.R. Martin, C.D. Keating, M.J. Natan, and T.E. Mallouk DNA-directed assembly of gold nanowires on complementary surfaces Adv. Mater. 13 2001 249 254 (Pubitemid 32255133)
    • (2001) Advanced Materials , vol.13 , Issue.4 , pp. 249-254
    • Mbindyo, J.K.N.1    Reiss, B.D.2    Martin, B.R.3    Keating, C.D.4    Natan, M.J.5    Mallouk, T.E.6
  • 52
    • 4644291833 scopus 로고    scopus 로고
    • Colorimetric detection of DNA sequences based on electrostatic interactions with unmodified gold nanoparticles
    • DOI 10.1073/pnas.0406115101
    • H. Li, and L. Rothberg Colorimetric detection of DNA sequences based on electrostatic interactions with unmodified gold nanoparticles Proc. Natl. Acad. Sci. U.S.A. 101 2004 14036 14039 (Pubitemid 39305025)
    • (2004) Proceedings of the National Academy of Sciences of the United States of America , vol.101 , Issue.39 , pp. 14036-14039
    • Li, H.1    Rothberg, L.2
  • 53
    • 0033884336 scopus 로고    scopus 로고
    • Immobilization of nucleic acids at solid surfaces: Effect of oligonucleotide length on layer assembly
    • A. Steel, R. Levicky, T. Herne, and M.J. Tarlov Immobilization of nucleic acids at solid surfaces: effect of oligonucleotide length on layer assembly Biophys. J. 79 2000 975 981 (Pubitemid 30626188)
    • (2000) Biophysical Journal , vol.79 , Issue.2 , pp. 975-981
    • Steel, A.B.1    Levicky, R.L.2    Herne, T.M.3    Tarlov, M.J.4
  • 54
    • 0346910405 scopus 로고    scopus 로고
    • Controlling the adsorption and reactivity of DNA on gold
    • T. Aqua, R. Naaman, and S. Daube Controlling the adsorption and reactivity of DNA on gold Langmuir 19 2003 10573 10580
    • (2003) Langmuir , vol.19 , pp. 10573-10580
    • Aqua, T.1    Naaman, R.2    Daube, S.3
  • 55
    • 7544228222 scopus 로고    scopus 로고
    • Changes in oligonucleotide conformation on nanoparticle surfaces by modification with mercaptohexanol
    • S. Park, K.A. Brown, and K. Hamad-Schifferli Changes in oligonucleotide conformation on nanoparticle surfaces by modification with mercaptohexanol Nano Lett. 4 2004 1925 1929
    • (2004) Nano Lett. , vol.4 , pp. 1925-1929
    • Park, S.1    Brown, K.A.2    Hamad-Schifferli, K.3


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