Abstract

Optically controlled release of a DNA strand based on a nonradiative relaxation process of black hole quenchers (BHQs), which are a sort of dark quenchers, is presented. BHQs act as efficient energy sources because they relax completely via a nonradiative process, i.e., without fluorescent emission-based energy losses. A DNA strand is modified with BHQs and the release of its complementary strand is controlled by excitation of the BHQs. Experimental results showed that up to 50% of the target strands were released, and these strands were capable of inducing subsequent reactions. The controlled release was localized on a substrate within an area of no more than 5 micrometers in diameter.

© 2016 Optical Society of America

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References

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2015 (6)

M. Larance and A. I. Lamond, “Multidimensional proteomics for cell biology,” Nat. Rev. Mol. Cell Biol. 16, 269–280 (2015).
[Crossref] [PubMed]

J. Hemphill, E. K. Borchardt, K. Brown, A. Asokan, and A. Deiters, “Optical Control of CRISPR/Cas9 Gene Editing,” J. Am. Chem. Soc. 137(17), 5642–5645 (2015).
[Crossref] [PubMed]

L. Lin, L. Liu, B. Zhao, R. Xie, W. Lin, H. Li, Y. Li, M. Shi, Y.-G. Chen, T. A. Springer, and X. Chen, “Carbon nanotube-assisted optical activation of TGF-β signaling by near-infrared light,” Nat. Nanotechnol. 10(5), 465–471 (2015).
[Crossref] [PubMed]

J. Hemphill, Q. Liu, R. Uprety, S. Samanta, M. Tsang, R. L. Juliano, and A. Deiters, “Conditional Control of Alternative Splicing through Light-Triggered Splice-Switching Oligonucleotides,” J. Am. Chem. Soc. 137(10), 3656–3663 (2015).
[Crossref] [PubMed]

V. A. N. Huu, J. Luo, J. Zhu, J. Zhu, S. Patel, A. Boone, E. Mahmoud, C. McFearin, J. Olejniczak, C. G. Lux, J. Lux, N. Fomina, M. Huynh, K. Zhang, and A. Almutairi, “Light-responsive nanoparticle depot to control release of a small molecule angiogenesis inhibitor in the posterior segment of the eye,” J. Control. Release 200, 71–77 (2015).
[Crossref] [PubMed]

T. Nishimura, R. Fujii, Y. Ogura, and J. Tanida, “Optically controllable molecular logic circuits,” Appl. Phys. Lett. 107(1), 013701 (2015).
[Crossref]

2014 (6)

W. Bae, K. Kim, D. Min, J.-K. Ryu, C. Hyeon, and T.-Y. Yoon, “Programmed folding of DNA origami structures through single-molecule force control,” Nat. Commun. 5, 5654 (2014).
[Crossref] [PubMed]

T. Sakamoto, A. Shigeno, Y. Ohtaki, and K. Fujimoto, “Photo-regulation of constitutive gene expression in living cells by using ultrafast photo-cross-linking oligonucleotides,” Biomater. Sci. 2(9), 1154–1157 (2014).
[Crossref]

L. Lia, R. Tong, H. Chu, W. Wang, R. Langer, and D. S. Kohane, “Aptamer photoregulation in vivo,” PNAS 111(48), 17099–17103 (2014).
[Crossref]

J. Broichhagen, M. Schönberger, S. C. Cork, J. A. Frank, P. Marchetti, M. Bugliani, A. M. J. Shapiro, S. Trapp, G. A. Rutter, D. J. Hodson, and D. Trauner, “Optical control of insulin release using a photoswitchable sulfonylurea,” Nat. Commun. 5, 5116 (2014).
[Crossref] [PubMed]

Y. Wang, H. He, S. Li, D. Liu, B. Lan, M. Hu, Y. Cao, and C. Wang, “All-optical regulation of gene expression in targeted cells,” Sci. Rep. 4, 5346 (2014).
[PubMed]

T. Nomoto, S. Fukushima, M. Kumagai, K. Machitani, Arnida, Y. Matsumoto, M. Oba, K. Miyata, K. Osada, N. Nishiyama, and K. Kataoka, “Three-layered polyplex micelle as a multifunctional nanocarrier platform for light-induced systemic gene transfer,” Nat. Commun. 5, 3545 (2014).
[Crossref] [PubMed]

2013 (1)

A. M. L. Hossion, M. Bio, G. Nkepang, S. G. Awuah, and Y. You, “Visible Light Controlled Release of Anticancer Drug through Double Activation of Prodrug,” ACS Med. Chem. Lett. 4(1), 124–127 (2013).
[Crossref] [PubMed]

2012 (1)

T. Nishimura, Y. Ogura, and J. Tanida, “Fluorescence resonance energy transfer-based molecular logic circuit using a DNA scaffold,” Appl. Phys. Lett. 101(23), 233703 (2012).
[Crossref]

2011 (3)

N. Nandagopal and M. B. Elowitz, “Synthetic Biology: Integrated Gene Circuits,” Science 333(6047), 1244–1248 (2011).
[Crossref] [PubMed]

K. Deisseroth, “Optogenetics,” Nat. Methods 8(1), 26–29 (2011).
[Crossref]

S. Yamashita, H. Fukushima, Y. Akiyama, Y. Niidome, T. Mori, Y. Katayama, and T. Niidome, “Controlled-release system of single-stranded DNA triggered by the photothermal effect of gold nanorods and its in vivo application,” Bioorg. Med. Chem. 19(7), 2130–2135 (2011).
[Crossref] [PubMed]

2010 (4)

J. F. Lovell, H. Jin, K. K. Ng, and G. Zheng, “Programmed Nanoparticle Aggregation Using Molecular Beacons,” Angew. Chem. Int. Ed. 49, 7917–7919 (2010).
[Crossref]

A. Gaiduk, M. Yorulmaz, P. V. Ruijgrok, and M. Orrit, “Room-Temperature Detection of a Single Molecule’s Absorption by Photothermal Contrast,” Science 330(6002), 353–356 (2010).
[Crossref] [PubMed]

T.-L. Tsai, D.-B. Shieh, C.-S. Yeh, Y. Tzeng, K. Htet, K.-S. Chuang, J. R. Hwu, and W.-C. Sui, “The down regulation of target genes by photo activated DNA nanoscissors,” Biomaterials 31(25), 6545–6554 (2010).
[Crossref] [PubMed]

J. F. Lovell, J. Chen, E. Huynh, M. T. Jarvi, B. C. Wilson, and G. Zheng, “Facile Synthesis of Advanced Photodynamic Molecular Beacon Architectures,” Bioconjugate Chem. 21, 1023–1025 (2010).
[Crossref]

2009 (4)

E. S. Andersen, M. Dong, M. M. Nielsen, K. Jahn, R. Subramani, W. Mamdouh, M. M. Golas, B. Sander, H. Stark, C. L. P. Oliveira, J. S. Pedersen, V. Birkedal, F. Besenbacher, K. V. Gothelf, and J. Kjems, “Self-assembly of a nanoscale DNA box with a controllable lid,” Nature 459(7243), 73–76 (2009) .
[Crossref] [PubMed]

S. E. Lee, G. L. Liu, F. Kim, and L. P. Lee, “Remote Optical Switch for Localized and Selective Control of Gene Interference,” Nano Lett. 9(2), 562–570 (2009).
[Crossref] [PubMed]

A. Wijaya, S. B. Schaffer, I. G. Pallares, and K. Hamad-Schifferli, “Selective Release of Multiple DNA Oligonucleotides from Gold Nanorods,” ACS Nano 3(1), 80–86 (2009).
[Crossref] [PubMed]

A. Barhoumi, R. Huschka, R. Bardhan, M. W. Knight, and N. J. Halas, “Light-induced release of DNA from plasmon-resonant nanoparticles: Towards light-controlled gene therapy,” Chem. Phys. Lett. 482(4–6), 171–179 (2009).
[Crossref]

2008 (1)

C. Pistol, C. Dwyer, and A. R. Lebeck, “Nanoscale Optical Computing Using Resonance Energy Transfer Logic,” IEEE Micro 28(6), 7–18 (2008).
[Crossref]

2006 (1)

G. Han, C.-C. You, B. Kim, R. S. Turingan, N. S. Forbes, C. T. Martin, and V. M. Rotello, “Light-regulated release of DNA and its delivery to nuclei by means of photolabile gold nanoparticles,” Angew. Chem. Int. Ed. Engl. 45(19), 3165–3169 (2006).
[Crossref] [PubMed]

2002 (1)

S. A. E. Marras, F. R. Kramer, and S. Tyagi, “Efficiencies of fluorescence resonance energy transfer and contact-mediated quenching in oligonucleotide probes,” Nucleic Acids Res.,  30(21), e122 (2002).
[Crossref] [PubMed]

2001 (1)

J. Li, W. Tan, K. Wang, D. Xiao, X. Yang, X. He, and Z. Tang, “Ultrasensitive Optical DNA Biosensor Based on Surface Immobilization of Molecular Beacon by a Bridge Structure,” Anal. Sci. 17(10), 1149–1153 (2001).
[Crossref]

Akiyama, Y.

S. Yamashita, H. Fukushima, Y. Akiyama, Y. Niidome, T. Mori, Y. Katayama, and T. Niidome, “Controlled-release system of single-stranded DNA triggered by the photothermal effect of gold nanorods and its in vivo application,” Bioorg. Med. Chem. 19(7), 2130–2135 (2011).
[Crossref] [PubMed]

Almutairi, A.

V. A. N. Huu, J. Luo, J. Zhu, J. Zhu, S. Patel, A. Boone, E. Mahmoud, C. McFearin, J. Olejniczak, C. G. Lux, J. Lux, N. Fomina, M. Huynh, K. Zhang, and A. Almutairi, “Light-responsive nanoparticle depot to control release of a small molecule angiogenesis inhibitor in the posterior segment of the eye,” J. Control. Release 200, 71–77 (2015).
[Crossref] [PubMed]

Andersen, E. S.

E. S. Andersen, M. Dong, M. M. Nielsen, K. Jahn, R. Subramani, W. Mamdouh, M. M. Golas, B. Sander, H. Stark, C. L. P. Oliveira, J. S. Pedersen, V. Birkedal, F. Besenbacher, K. V. Gothelf, and J. Kjems, “Self-assembly of a nanoscale DNA box with a controllable lid,” Nature 459(7243), 73–76 (2009) .
[Crossref] [PubMed]

Arnida,

T. Nomoto, S. Fukushima, M. Kumagai, K. Machitani, Arnida, Y. Matsumoto, M. Oba, K. Miyata, K. Osada, N. Nishiyama, and K. Kataoka, “Three-layered polyplex micelle as a multifunctional nanocarrier platform for light-induced systemic gene transfer,” Nat. Commun. 5, 3545 (2014).
[Crossref] [PubMed]

Asokan, A.

J. Hemphill, E. K. Borchardt, K. Brown, A. Asokan, and A. Deiters, “Optical Control of CRISPR/Cas9 Gene Editing,” J. Am. Chem. Soc. 137(17), 5642–5645 (2015).
[Crossref] [PubMed]

Awuah, S. G.

A. M. L. Hossion, M. Bio, G. Nkepang, S. G. Awuah, and Y. You, “Visible Light Controlled Release of Anticancer Drug through Double Activation of Prodrug,” ACS Med. Chem. Lett. 4(1), 124–127 (2013).
[Crossref] [PubMed]

Bae, W.

W. Bae, K. Kim, D. Min, J.-K. Ryu, C. Hyeon, and T.-Y. Yoon, “Programmed folding of DNA origami structures through single-molecule force control,” Nat. Commun. 5, 5654 (2014).
[Crossref] [PubMed]

Bardhan, R.

A. Barhoumi, R. Huschka, R. Bardhan, M. W. Knight, and N. J. Halas, “Light-induced release of DNA from plasmon-resonant nanoparticles: Towards light-controlled gene therapy,” Chem. Phys. Lett. 482(4–6), 171–179 (2009).
[Crossref]

Barhoumi, A.

A. Barhoumi, R. Huschka, R. Bardhan, M. W. Knight, and N. J. Halas, “Light-induced release of DNA from plasmon-resonant nanoparticles: Towards light-controlled gene therapy,” Chem. Phys. Lett. 482(4–6), 171–179 (2009).
[Crossref]

Besenbacher, F.

E. S. Andersen, M. Dong, M. M. Nielsen, K. Jahn, R. Subramani, W. Mamdouh, M. M. Golas, B. Sander, H. Stark, C. L. P. Oliveira, J. S. Pedersen, V. Birkedal, F. Besenbacher, K. V. Gothelf, and J. Kjems, “Self-assembly of a nanoscale DNA box with a controllable lid,” Nature 459(7243), 73–76 (2009) .
[Crossref] [PubMed]

Bio, M.

A. M. L. Hossion, M. Bio, G. Nkepang, S. G. Awuah, and Y. You, “Visible Light Controlled Release of Anticancer Drug through Double Activation of Prodrug,” ACS Med. Chem. Lett. 4(1), 124–127 (2013).
[Crossref] [PubMed]

Birkedal, V.

E. S. Andersen, M. Dong, M. M. Nielsen, K. Jahn, R. Subramani, W. Mamdouh, M. M. Golas, B. Sander, H. Stark, C. L. P. Oliveira, J. S. Pedersen, V. Birkedal, F. Besenbacher, K. V. Gothelf, and J. Kjems, “Self-assembly of a nanoscale DNA box with a controllable lid,” Nature 459(7243), 73–76 (2009) .
[Crossref] [PubMed]

Boone, A.

V. A. N. Huu, J. Luo, J. Zhu, J. Zhu, S. Patel, A. Boone, E. Mahmoud, C. McFearin, J. Olejniczak, C. G. Lux, J. Lux, N. Fomina, M. Huynh, K. Zhang, and A. Almutairi, “Light-responsive nanoparticle depot to control release of a small molecule angiogenesis inhibitor in the posterior segment of the eye,” J. Control. Release 200, 71–77 (2015).
[Crossref] [PubMed]

Borchardt, E. K.

J. Hemphill, E. K. Borchardt, K. Brown, A. Asokan, and A. Deiters, “Optical Control of CRISPR/Cas9 Gene Editing,” J. Am. Chem. Soc. 137(17), 5642–5645 (2015).
[Crossref] [PubMed]

Broichhagen, J.

J. Broichhagen, M. Schönberger, S. C. Cork, J. A. Frank, P. Marchetti, M. Bugliani, A. M. J. Shapiro, S. Trapp, G. A. Rutter, D. J. Hodson, and D. Trauner, “Optical control of insulin release using a photoswitchable sulfonylurea,” Nat. Commun. 5, 5116 (2014).
[Crossref] [PubMed]

Brown, K.

J. Hemphill, E. K. Borchardt, K. Brown, A. Asokan, and A. Deiters, “Optical Control of CRISPR/Cas9 Gene Editing,” J. Am. Chem. Soc. 137(17), 5642–5645 (2015).
[Crossref] [PubMed]

Bugliani, M.

J. Broichhagen, M. Schönberger, S. C. Cork, J. A. Frank, P. Marchetti, M. Bugliani, A. M. J. Shapiro, S. Trapp, G. A. Rutter, D. J. Hodson, and D. Trauner, “Optical control of insulin release using a photoswitchable sulfonylurea,” Nat. Commun. 5, 5116 (2014).
[Crossref] [PubMed]

Cao, Y.

Y. Wang, H. He, S. Li, D. Liu, B. Lan, M. Hu, Y. Cao, and C. Wang, “All-optical regulation of gene expression in targeted cells,” Sci. Rep. 4, 5346 (2014).
[PubMed]

Chen, J.

J. F. Lovell, J. Chen, E. Huynh, M. T. Jarvi, B. C. Wilson, and G. Zheng, “Facile Synthesis of Advanced Photodynamic Molecular Beacon Architectures,” Bioconjugate Chem. 21, 1023–1025 (2010).
[Crossref]

Chen, X.

L. Lin, L. Liu, B. Zhao, R. Xie, W. Lin, H. Li, Y. Li, M. Shi, Y.-G. Chen, T. A. Springer, and X. Chen, “Carbon nanotube-assisted optical activation of TGF-β signaling by near-infrared light,” Nat. Nanotechnol. 10(5), 465–471 (2015).
[Crossref] [PubMed]

Chen, Y.-G.

L. Lin, L. Liu, B. Zhao, R. Xie, W. Lin, H. Li, Y. Li, M. Shi, Y.-G. Chen, T. A. Springer, and X. Chen, “Carbon nanotube-assisted optical activation of TGF-β signaling by near-infrared light,” Nat. Nanotechnol. 10(5), 465–471 (2015).
[Crossref] [PubMed]

Chu, H.

L. Lia, R. Tong, H. Chu, W. Wang, R. Langer, and D. S. Kohane, “Aptamer photoregulation in vivo,” PNAS 111(48), 17099–17103 (2014).
[Crossref]

Chuang, K.-S.

T.-L. Tsai, D.-B. Shieh, C.-S. Yeh, Y. Tzeng, K. Htet, K.-S. Chuang, J. R. Hwu, and W.-C. Sui, “The down regulation of target genes by photo activated DNA nanoscissors,” Biomaterials 31(25), 6545–6554 (2010).
[Crossref] [PubMed]

Cork, S. C.

J. Broichhagen, M. Schönberger, S. C. Cork, J. A. Frank, P. Marchetti, M. Bugliani, A. M. J. Shapiro, S. Trapp, G. A. Rutter, D. J. Hodson, and D. Trauner, “Optical control of insulin release using a photoswitchable sulfonylurea,” Nat. Commun. 5, 5116 (2014).
[Crossref] [PubMed]

Deisseroth, K.

K. Deisseroth, “Optogenetics,” Nat. Methods 8(1), 26–29 (2011).
[Crossref]

Deiters, A.

J. Hemphill, E. K. Borchardt, K. Brown, A. Asokan, and A. Deiters, “Optical Control of CRISPR/Cas9 Gene Editing,” J. Am. Chem. Soc. 137(17), 5642–5645 (2015).
[Crossref] [PubMed]

J. Hemphill, Q. Liu, R. Uprety, S. Samanta, M. Tsang, R. L. Juliano, and A. Deiters, “Conditional Control of Alternative Splicing through Light-Triggered Splice-Switching Oligonucleotides,” J. Am. Chem. Soc. 137(10), 3656–3663 (2015).
[Crossref] [PubMed]

Dong, M.

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[PubMed]

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S. E. Lee, G. L. Liu, F. Kim, and L. P. Lee, “Remote Optical Switch for Localized and Selective Control of Gene Interference,” Nano Lett. 9(2), 562–570 (2009).
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J. F. Lovell, H. Jin, K. K. Ng, and G. Zheng, “Programmed Nanoparticle Aggregation Using Molecular Beacons,” Angew. Chem. Int. Ed. 49, 7917–7919 (2010).
[Crossref]

J. F. Lovell, J. Chen, E. Huynh, M. T. Jarvi, B. C. Wilson, and G. Zheng, “Facile Synthesis of Advanced Photodynamic Molecular Beacon Architectures,” Bioconjugate Chem. 21, 1023–1025 (2010).
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J. Broichhagen, M. Schönberger, S. C. Cork, J. A. Frank, P. Marchetti, M. Bugliani, A. M. J. Shapiro, S. Trapp, G. A. Rutter, D. J. Hodson, and D. Trauner, “Optical control of insulin release using a photoswitchable sulfonylurea,” Nat. Commun. 5, 5116 (2014).
[Crossref] [PubMed]

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S. A. E. Marras, F. R. Kramer, and S. Tyagi, “Efficiencies of fluorescence resonance energy transfer and contact-mediated quenching in oligonucleotide probes,” Nucleic Acids Res.,  30(21), e122 (2002).
[Crossref] [PubMed]

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G. Han, C.-C. You, B. Kim, R. S. Turingan, N. S. Forbes, C. T. Martin, and V. M. Rotello, “Light-regulated release of DNA and its delivery to nuclei by means of photolabile gold nanoparticles,” Angew. Chem. Int. Ed. Engl. 45(19), 3165–3169 (2006).
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T. Nomoto, S. Fukushima, M. Kumagai, K. Machitani, Arnida, Y. Matsumoto, M. Oba, K. Miyata, K. Osada, N. Nishiyama, and K. Kataoka, “Three-layered polyplex micelle as a multifunctional nanocarrier platform for light-induced systemic gene transfer,” Nat. Commun. 5, 3545 (2014).
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W. Bae, K. Kim, D. Min, J.-K. Ryu, C. Hyeon, and T.-Y. Yoon, “Programmed folding of DNA origami structures through single-molecule force control,” Nat. Commun. 5, 5654 (2014).
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T. Nomoto, S. Fukushima, M. Kumagai, K. Machitani, Arnida, Y. Matsumoto, M. Oba, K. Miyata, K. Osada, N. Nishiyama, and K. Kataoka, “Three-layered polyplex micelle as a multifunctional nanocarrier platform for light-induced systemic gene transfer,” Nat. Commun. 5, 3545 (2014).
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S. Yamashita, H. Fukushima, Y. Akiyama, Y. Niidome, T. Mori, Y. Katayama, and T. Niidome, “Controlled-release system of single-stranded DNA triggered by the photothermal effect of gold nanorods and its in vivo application,” Bioorg. Med. Chem. 19(7), 2130–2135 (2011).
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N. Nandagopal and M. B. Elowitz, “Synthetic Biology: Integrated Gene Circuits,” Science 333(6047), 1244–1248 (2011).
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J. F. Lovell, H. Jin, K. K. Ng, and G. Zheng, “Programmed Nanoparticle Aggregation Using Molecular Beacons,” Angew. Chem. Int. Ed. 49, 7917–7919 (2010).
[Crossref]

Nielsen, M. M.

E. S. Andersen, M. Dong, M. M. Nielsen, K. Jahn, R. Subramani, W. Mamdouh, M. M. Golas, B. Sander, H. Stark, C. L. P. Oliveira, J. S. Pedersen, V. Birkedal, F. Besenbacher, K. V. Gothelf, and J. Kjems, “Self-assembly of a nanoscale DNA box with a controllable lid,” Nature 459(7243), 73–76 (2009) .
[Crossref] [PubMed]

Niidome, T.

S. Yamashita, H. Fukushima, Y. Akiyama, Y. Niidome, T. Mori, Y. Katayama, and T. Niidome, “Controlled-release system of single-stranded DNA triggered by the photothermal effect of gold nanorods and its in vivo application,” Bioorg. Med. Chem. 19(7), 2130–2135 (2011).
[Crossref] [PubMed]

Niidome, Y.

S. Yamashita, H. Fukushima, Y. Akiyama, Y. Niidome, T. Mori, Y. Katayama, and T. Niidome, “Controlled-release system of single-stranded DNA triggered by the photothermal effect of gold nanorods and its in vivo application,” Bioorg. Med. Chem. 19(7), 2130–2135 (2011).
[Crossref] [PubMed]

Nishimura, T.

T. Nishimura, R. Fujii, Y. Ogura, and J. Tanida, “Optically controllable molecular logic circuits,” Appl. Phys. Lett. 107(1), 013701 (2015).
[Crossref]

T. Nishimura, Y. Ogura, and J. Tanida, “Fluorescence resonance energy transfer-based molecular logic circuit using a DNA scaffold,” Appl. Phys. Lett. 101(23), 233703 (2012).
[Crossref]

Nishiyama, N.

T. Nomoto, S. Fukushima, M. Kumagai, K. Machitani, Arnida, Y. Matsumoto, M. Oba, K. Miyata, K. Osada, N. Nishiyama, and K. Kataoka, “Three-layered polyplex micelle as a multifunctional nanocarrier platform for light-induced systemic gene transfer,” Nat. Commun. 5, 3545 (2014).
[Crossref] [PubMed]

Nkepang, G.

A. M. L. Hossion, M. Bio, G. Nkepang, S. G. Awuah, and Y. You, “Visible Light Controlled Release of Anticancer Drug through Double Activation of Prodrug,” ACS Med. Chem. Lett. 4(1), 124–127 (2013).
[Crossref] [PubMed]

Nomoto, T.

T. Nomoto, S. Fukushima, M. Kumagai, K. Machitani, Arnida, Y. Matsumoto, M. Oba, K. Miyata, K. Osada, N. Nishiyama, and K. Kataoka, “Three-layered polyplex micelle as a multifunctional nanocarrier platform for light-induced systemic gene transfer,” Nat. Commun. 5, 3545 (2014).
[Crossref] [PubMed]

Oba, M.

T. Nomoto, S. Fukushima, M. Kumagai, K. Machitani, Arnida, Y. Matsumoto, M. Oba, K. Miyata, K. Osada, N. Nishiyama, and K. Kataoka, “Three-layered polyplex micelle as a multifunctional nanocarrier platform for light-induced systemic gene transfer,” Nat. Commun. 5, 3545 (2014).
[Crossref] [PubMed]

Ogura, Y.

T. Nishimura, R. Fujii, Y. Ogura, and J. Tanida, “Optically controllable molecular logic circuits,” Appl. Phys. Lett. 107(1), 013701 (2015).
[Crossref]

T. Nishimura, Y. Ogura, and J. Tanida, “Fluorescence resonance energy transfer-based molecular logic circuit using a DNA scaffold,” Appl. Phys. Lett. 101(23), 233703 (2012).
[Crossref]

Ohtaki, Y.

T. Sakamoto, A. Shigeno, Y. Ohtaki, and K. Fujimoto, “Photo-regulation of constitutive gene expression in living cells by using ultrafast photo-cross-linking oligonucleotides,” Biomater. Sci. 2(9), 1154–1157 (2014).
[Crossref]

Olejniczak, J.

V. A. N. Huu, J. Luo, J. Zhu, J. Zhu, S. Patel, A. Boone, E. Mahmoud, C. McFearin, J. Olejniczak, C. G. Lux, J. Lux, N. Fomina, M. Huynh, K. Zhang, and A. Almutairi, “Light-responsive nanoparticle depot to control release of a small molecule angiogenesis inhibitor in the posterior segment of the eye,” J. Control. Release 200, 71–77 (2015).
[Crossref] [PubMed]

Oliveira, C. L. P.

E. S. Andersen, M. Dong, M. M. Nielsen, K. Jahn, R. Subramani, W. Mamdouh, M. M. Golas, B. Sander, H. Stark, C. L. P. Oliveira, J. S. Pedersen, V. Birkedal, F. Besenbacher, K. V. Gothelf, and J. Kjems, “Self-assembly of a nanoscale DNA box with a controllable lid,” Nature 459(7243), 73–76 (2009) .
[Crossref] [PubMed]

Orrit, M.

A. Gaiduk, M. Yorulmaz, P. V. Ruijgrok, and M. Orrit, “Room-Temperature Detection of a Single Molecule’s Absorption by Photothermal Contrast,” Science 330(6002), 353–356 (2010).
[Crossref] [PubMed]

Osada, K.

T. Nomoto, S. Fukushima, M. Kumagai, K. Machitani, Arnida, Y. Matsumoto, M. Oba, K. Miyata, K. Osada, N. Nishiyama, and K. Kataoka, “Three-layered polyplex micelle as a multifunctional nanocarrier platform for light-induced systemic gene transfer,” Nat. Commun. 5, 3545 (2014).
[Crossref] [PubMed]

Pallares, I. G.

A. Wijaya, S. B. Schaffer, I. G. Pallares, and K. Hamad-Schifferli, “Selective Release of Multiple DNA Oligonucleotides from Gold Nanorods,” ACS Nano 3(1), 80–86 (2009).
[Crossref] [PubMed]

Patel, S.

V. A. N. Huu, J. Luo, J. Zhu, J. Zhu, S. Patel, A. Boone, E. Mahmoud, C. McFearin, J. Olejniczak, C. G. Lux, J. Lux, N. Fomina, M. Huynh, K. Zhang, and A. Almutairi, “Light-responsive nanoparticle depot to control release of a small molecule angiogenesis inhibitor in the posterior segment of the eye,” J. Control. Release 200, 71–77 (2015).
[Crossref] [PubMed]

Pedersen, J. S.

E. S. Andersen, M. Dong, M. M. Nielsen, K. Jahn, R. Subramani, W. Mamdouh, M. M. Golas, B. Sander, H. Stark, C. L. P. Oliveira, J. S. Pedersen, V. Birkedal, F. Besenbacher, K. V. Gothelf, and J. Kjems, “Self-assembly of a nanoscale DNA box with a controllable lid,” Nature 459(7243), 73–76 (2009) .
[Crossref] [PubMed]

Pistol, C.

C. Pistol, C. Dwyer, and A. R. Lebeck, “Nanoscale Optical Computing Using Resonance Energy Transfer Logic,” IEEE Micro 28(6), 7–18 (2008).
[Crossref]

Rotello, V. M.

G. Han, C.-C. You, B. Kim, R. S. Turingan, N. S. Forbes, C. T. Martin, and V. M. Rotello, “Light-regulated release of DNA and its delivery to nuclei by means of photolabile gold nanoparticles,” Angew. Chem. Int. Ed. Engl. 45(19), 3165–3169 (2006).
[Crossref] [PubMed]

Ruijgrok, P. V.

A. Gaiduk, M. Yorulmaz, P. V. Ruijgrok, and M. Orrit, “Room-Temperature Detection of a Single Molecule’s Absorption by Photothermal Contrast,” Science 330(6002), 353–356 (2010).
[Crossref] [PubMed]

Rutter, G. A.

J. Broichhagen, M. Schönberger, S. C. Cork, J. A. Frank, P. Marchetti, M. Bugliani, A. M. J. Shapiro, S. Trapp, G. A. Rutter, D. J. Hodson, and D. Trauner, “Optical control of insulin release using a photoswitchable sulfonylurea,” Nat. Commun. 5, 5116 (2014).
[Crossref] [PubMed]

Ryu, J.-K.

W. Bae, K. Kim, D. Min, J.-K. Ryu, C. Hyeon, and T.-Y. Yoon, “Programmed folding of DNA origami structures through single-molecule force control,” Nat. Commun. 5, 5654 (2014).
[Crossref] [PubMed]

Sakamoto, T.

T. Sakamoto, A. Shigeno, Y. Ohtaki, and K. Fujimoto, “Photo-regulation of constitutive gene expression in living cells by using ultrafast photo-cross-linking oligonucleotides,” Biomater. Sci. 2(9), 1154–1157 (2014).
[Crossref]

Samanta, S.

J. Hemphill, Q. Liu, R. Uprety, S. Samanta, M. Tsang, R. L. Juliano, and A. Deiters, “Conditional Control of Alternative Splicing through Light-Triggered Splice-Switching Oligonucleotides,” J. Am. Chem. Soc. 137(10), 3656–3663 (2015).
[Crossref] [PubMed]

Sander, B.

E. S. Andersen, M. Dong, M. M. Nielsen, K. Jahn, R. Subramani, W. Mamdouh, M. M. Golas, B. Sander, H. Stark, C. L. P. Oliveira, J. S. Pedersen, V. Birkedal, F. Besenbacher, K. V. Gothelf, and J. Kjems, “Self-assembly of a nanoscale DNA box with a controllable lid,” Nature 459(7243), 73–76 (2009) .
[Crossref] [PubMed]

Schaffer, S. B.

A. Wijaya, S. B. Schaffer, I. G. Pallares, and K. Hamad-Schifferli, “Selective Release of Multiple DNA Oligonucleotides from Gold Nanorods,” ACS Nano 3(1), 80–86 (2009).
[Crossref] [PubMed]

Schönberger, M.

J. Broichhagen, M. Schönberger, S. C. Cork, J. A. Frank, P. Marchetti, M. Bugliani, A. M. J. Shapiro, S. Trapp, G. A. Rutter, D. J. Hodson, and D. Trauner, “Optical control of insulin release using a photoswitchable sulfonylurea,” Nat. Commun. 5, 5116 (2014).
[Crossref] [PubMed]

Shapiro, A. M. J.

J. Broichhagen, M. Schönberger, S. C. Cork, J. A. Frank, P. Marchetti, M. Bugliani, A. M. J. Shapiro, S. Trapp, G. A. Rutter, D. J. Hodson, and D. Trauner, “Optical control of insulin release using a photoswitchable sulfonylurea,” Nat. Commun. 5, 5116 (2014).
[Crossref] [PubMed]

Shi, M.

L. Lin, L. Liu, B. Zhao, R. Xie, W. Lin, H. Li, Y. Li, M. Shi, Y.-G. Chen, T. A. Springer, and X. Chen, “Carbon nanotube-assisted optical activation of TGF-β signaling by near-infrared light,” Nat. Nanotechnol. 10(5), 465–471 (2015).
[Crossref] [PubMed]

Shieh, D.-B.

T.-L. Tsai, D.-B. Shieh, C.-S. Yeh, Y. Tzeng, K. Htet, K.-S. Chuang, J. R. Hwu, and W.-C. Sui, “The down regulation of target genes by photo activated DNA nanoscissors,” Biomaterials 31(25), 6545–6554 (2010).
[Crossref] [PubMed]

Shigeno, A.

T. Sakamoto, A. Shigeno, Y. Ohtaki, and K. Fujimoto, “Photo-regulation of constitutive gene expression in living cells by using ultrafast photo-cross-linking oligonucleotides,” Biomater. Sci. 2(9), 1154–1157 (2014).
[Crossref]

Springer, T. A.

L. Lin, L. Liu, B. Zhao, R. Xie, W. Lin, H. Li, Y. Li, M. Shi, Y.-G. Chen, T. A. Springer, and X. Chen, “Carbon nanotube-assisted optical activation of TGF-β signaling by near-infrared light,” Nat. Nanotechnol. 10(5), 465–471 (2015).
[Crossref] [PubMed]

Stark, H.

E. S. Andersen, M. Dong, M. M. Nielsen, K. Jahn, R. Subramani, W. Mamdouh, M. M. Golas, B. Sander, H. Stark, C. L. P. Oliveira, J. S. Pedersen, V. Birkedal, F. Besenbacher, K. V. Gothelf, and J. Kjems, “Self-assembly of a nanoscale DNA box with a controllable lid,” Nature 459(7243), 73–76 (2009) .
[Crossref] [PubMed]

Subramani, R.

E. S. Andersen, M. Dong, M. M. Nielsen, K. Jahn, R. Subramani, W. Mamdouh, M. M. Golas, B. Sander, H. Stark, C. L. P. Oliveira, J. S. Pedersen, V. Birkedal, F. Besenbacher, K. V. Gothelf, and J. Kjems, “Self-assembly of a nanoscale DNA box with a controllable lid,” Nature 459(7243), 73–76 (2009) .
[Crossref] [PubMed]

Sui, W.-C.

T.-L. Tsai, D.-B. Shieh, C.-S. Yeh, Y. Tzeng, K. Htet, K.-S. Chuang, J. R. Hwu, and W.-C. Sui, “The down regulation of target genes by photo activated DNA nanoscissors,” Biomaterials 31(25), 6545–6554 (2010).
[Crossref] [PubMed]

Tan, W.

J. Li, W. Tan, K. Wang, D. Xiao, X. Yang, X. He, and Z. Tang, “Ultrasensitive Optical DNA Biosensor Based on Surface Immobilization of Molecular Beacon by a Bridge Structure,” Anal. Sci. 17(10), 1149–1153 (2001).
[Crossref]

Tang, Z.

J. Li, W. Tan, K. Wang, D. Xiao, X. Yang, X. He, and Z. Tang, “Ultrasensitive Optical DNA Biosensor Based on Surface Immobilization of Molecular Beacon by a Bridge Structure,” Anal. Sci. 17(10), 1149–1153 (2001).
[Crossref]

Tanida, J.

T. Nishimura, R. Fujii, Y. Ogura, and J. Tanida, “Optically controllable molecular logic circuits,” Appl. Phys. Lett. 107(1), 013701 (2015).
[Crossref]

T. Nishimura, Y. Ogura, and J. Tanida, “Fluorescence resonance energy transfer-based molecular logic circuit using a DNA scaffold,” Appl. Phys. Lett. 101(23), 233703 (2012).
[Crossref]

Tong, R.

L. Lia, R. Tong, H. Chu, W. Wang, R. Langer, and D. S. Kohane, “Aptamer photoregulation in vivo,” PNAS 111(48), 17099–17103 (2014).
[Crossref]

Trapp, S.

J. Broichhagen, M. Schönberger, S. C. Cork, J. A. Frank, P. Marchetti, M. Bugliani, A. M. J. Shapiro, S. Trapp, G. A. Rutter, D. J. Hodson, and D. Trauner, “Optical control of insulin release using a photoswitchable sulfonylurea,” Nat. Commun. 5, 5116 (2014).
[Crossref] [PubMed]

Trauner, D.

J. Broichhagen, M. Schönberger, S. C. Cork, J. A. Frank, P. Marchetti, M. Bugliani, A. M. J. Shapiro, S. Trapp, G. A. Rutter, D. J. Hodson, and D. Trauner, “Optical control of insulin release using a photoswitchable sulfonylurea,” Nat. Commun. 5, 5116 (2014).
[Crossref] [PubMed]

Tsai, T.-L.

T.-L. Tsai, D.-B. Shieh, C.-S. Yeh, Y. Tzeng, K. Htet, K.-S. Chuang, J. R. Hwu, and W.-C. Sui, “The down regulation of target genes by photo activated DNA nanoscissors,” Biomaterials 31(25), 6545–6554 (2010).
[Crossref] [PubMed]

Tsang, M.

J. Hemphill, Q. Liu, R. Uprety, S. Samanta, M. Tsang, R. L. Juliano, and A. Deiters, “Conditional Control of Alternative Splicing through Light-Triggered Splice-Switching Oligonucleotides,” J. Am. Chem. Soc. 137(10), 3656–3663 (2015).
[Crossref] [PubMed]

Turingan, R. S.

G. Han, C.-C. You, B. Kim, R. S. Turingan, N. S. Forbes, C. T. Martin, and V. M. Rotello, “Light-regulated release of DNA and its delivery to nuclei by means of photolabile gold nanoparticles,” Angew. Chem. Int. Ed. Engl. 45(19), 3165–3169 (2006).
[Crossref] [PubMed]

Tyagi, S.

S. A. E. Marras, F. R. Kramer, and S. Tyagi, “Efficiencies of fluorescence resonance energy transfer and contact-mediated quenching in oligonucleotide probes,” Nucleic Acids Res.,  30(21), e122 (2002).
[Crossref] [PubMed]

Tzeng, Y.

T.-L. Tsai, D.-B. Shieh, C.-S. Yeh, Y. Tzeng, K. Htet, K.-S. Chuang, J. R. Hwu, and W.-C. Sui, “The down regulation of target genes by photo activated DNA nanoscissors,” Biomaterials 31(25), 6545–6554 (2010).
[Crossref] [PubMed]

Uprety, R.

J. Hemphill, Q. Liu, R. Uprety, S. Samanta, M. Tsang, R. L. Juliano, and A. Deiters, “Conditional Control of Alternative Splicing through Light-Triggered Splice-Switching Oligonucleotides,” J. Am. Chem. Soc. 137(10), 3656–3663 (2015).
[Crossref] [PubMed]

Wang, C.

Y. Wang, H. He, S. Li, D. Liu, B. Lan, M. Hu, Y. Cao, and C. Wang, “All-optical regulation of gene expression in targeted cells,” Sci. Rep. 4, 5346 (2014).
[PubMed]

Wang, K.

J. Li, W. Tan, K. Wang, D. Xiao, X. Yang, X. He, and Z. Tang, “Ultrasensitive Optical DNA Biosensor Based on Surface Immobilization of Molecular Beacon by a Bridge Structure,” Anal. Sci. 17(10), 1149–1153 (2001).
[Crossref]

Wang, W.

L. Lia, R. Tong, H. Chu, W. Wang, R. Langer, and D. S. Kohane, “Aptamer photoregulation in vivo,” PNAS 111(48), 17099–17103 (2014).
[Crossref]

Wang, Y.

Y. Wang, H. He, S. Li, D. Liu, B. Lan, M. Hu, Y. Cao, and C. Wang, “All-optical regulation of gene expression in targeted cells,” Sci. Rep. 4, 5346 (2014).
[PubMed]

Wijaya, A.

A. Wijaya, S. B. Schaffer, I. G. Pallares, and K. Hamad-Schifferli, “Selective Release of Multiple DNA Oligonucleotides from Gold Nanorods,” ACS Nano 3(1), 80–86 (2009).
[Crossref] [PubMed]

Wilson, B. C.

J. F. Lovell, J. Chen, E. Huynh, M. T. Jarvi, B. C. Wilson, and G. Zheng, “Facile Synthesis of Advanced Photodynamic Molecular Beacon Architectures,” Bioconjugate Chem. 21, 1023–1025 (2010).
[Crossref]

Xiao, D.

J. Li, W. Tan, K. Wang, D. Xiao, X. Yang, X. He, and Z. Tang, “Ultrasensitive Optical DNA Biosensor Based on Surface Immobilization of Molecular Beacon by a Bridge Structure,” Anal. Sci. 17(10), 1149–1153 (2001).
[Crossref]

Xie, R.

L. Lin, L. Liu, B. Zhao, R. Xie, W. Lin, H. Li, Y. Li, M. Shi, Y.-G. Chen, T. A. Springer, and X. Chen, “Carbon nanotube-assisted optical activation of TGF-β signaling by near-infrared light,” Nat. Nanotechnol. 10(5), 465–471 (2015).
[Crossref] [PubMed]

Yamashita, S.

S. Yamashita, H. Fukushima, Y. Akiyama, Y. Niidome, T. Mori, Y. Katayama, and T. Niidome, “Controlled-release system of single-stranded DNA triggered by the photothermal effect of gold nanorods and its in vivo application,” Bioorg. Med. Chem. 19(7), 2130–2135 (2011).
[Crossref] [PubMed]

Yang, X.

J. Li, W. Tan, K. Wang, D. Xiao, X. Yang, X. He, and Z. Tang, “Ultrasensitive Optical DNA Biosensor Based on Surface Immobilization of Molecular Beacon by a Bridge Structure,” Anal. Sci. 17(10), 1149–1153 (2001).
[Crossref]

Yeh, C.-S.

T.-L. Tsai, D.-B. Shieh, C.-S. Yeh, Y. Tzeng, K. Htet, K.-S. Chuang, J. R. Hwu, and W.-C. Sui, “The down regulation of target genes by photo activated DNA nanoscissors,” Biomaterials 31(25), 6545–6554 (2010).
[Crossref] [PubMed]

Yoon, T.-Y.

W. Bae, K. Kim, D. Min, J.-K. Ryu, C. Hyeon, and T.-Y. Yoon, “Programmed folding of DNA origami structures through single-molecule force control,” Nat. Commun. 5, 5654 (2014).
[Crossref] [PubMed]

Yorulmaz, M.

A. Gaiduk, M. Yorulmaz, P. V. Ruijgrok, and M. Orrit, “Room-Temperature Detection of a Single Molecule’s Absorption by Photothermal Contrast,” Science 330(6002), 353–356 (2010).
[Crossref] [PubMed]

You, C.-C.

G. Han, C.-C. You, B. Kim, R. S. Turingan, N. S. Forbes, C. T. Martin, and V. M. Rotello, “Light-regulated release of DNA and its delivery to nuclei by means of photolabile gold nanoparticles,” Angew. Chem. Int. Ed. Engl. 45(19), 3165–3169 (2006).
[Crossref] [PubMed]

You, Y.

A. M. L. Hossion, M. Bio, G. Nkepang, S. G. Awuah, and Y. You, “Visible Light Controlled Release of Anticancer Drug through Double Activation of Prodrug,” ACS Med. Chem. Lett. 4(1), 124–127 (2013).
[Crossref] [PubMed]

Zhang, K.

V. A. N. Huu, J. Luo, J. Zhu, J. Zhu, S. Patel, A. Boone, E. Mahmoud, C. McFearin, J. Olejniczak, C. G. Lux, J. Lux, N. Fomina, M. Huynh, K. Zhang, and A. Almutairi, “Light-responsive nanoparticle depot to control release of a small molecule angiogenesis inhibitor in the posterior segment of the eye,” J. Control. Release 200, 71–77 (2015).
[Crossref] [PubMed]

Zhao, B.

L. Lin, L. Liu, B. Zhao, R. Xie, W. Lin, H. Li, Y. Li, M. Shi, Y.-G. Chen, T. A. Springer, and X. Chen, “Carbon nanotube-assisted optical activation of TGF-β signaling by near-infrared light,” Nat. Nanotechnol. 10(5), 465–471 (2015).
[Crossref] [PubMed]

Zheng, G.

J. F. Lovell, H. Jin, K. K. Ng, and G. Zheng, “Programmed Nanoparticle Aggregation Using Molecular Beacons,” Angew. Chem. Int. Ed. 49, 7917–7919 (2010).
[Crossref]

J. F. Lovell, J. Chen, E. Huynh, M. T. Jarvi, B. C. Wilson, and G. Zheng, “Facile Synthesis of Advanced Photodynamic Molecular Beacon Architectures,” Bioconjugate Chem. 21, 1023–1025 (2010).
[Crossref]

Zhu, J.

V. A. N. Huu, J. Luo, J. Zhu, J. Zhu, S. Patel, A. Boone, E. Mahmoud, C. McFearin, J. Olejniczak, C. G. Lux, J. Lux, N. Fomina, M. Huynh, K. Zhang, and A. Almutairi, “Light-responsive nanoparticle depot to control release of a small molecule angiogenesis inhibitor in the posterior segment of the eye,” J. Control. Release 200, 71–77 (2015).
[Crossref] [PubMed]

V. A. N. Huu, J. Luo, J. Zhu, J. Zhu, S. Patel, A. Boone, E. Mahmoud, C. McFearin, J. Olejniczak, C. G. Lux, J. Lux, N. Fomina, M. Huynh, K. Zhang, and A. Almutairi, “Light-responsive nanoparticle depot to control release of a small molecule angiogenesis inhibitor in the posterior segment of the eye,” J. Control. Release 200, 71–77 (2015).
[Crossref] [PubMed]

ACS Med. Chem. Lett. (1)

A. M. L. Hossion, M. Bio, G. Nkepang, S. G. Awuah, and Y. You, “Visible Light Controlled Release of Anticancer Drug through Double Activation of Prodrug,” ACS Med. Chem. Lett. 4(1), 124–127 (2013).
[Crossref] [PubMed]

ACS Nano (1)

A. Wijaya, S. B. Schaffer, I. G. Pallares, and K. Hamad-Schifferli, “Selective Release of Multiple DNA Oligonucleotides from Gold Nanorods,” ACS Nano 3(1), 80–86 (2009).
[Crossref] [PubMed]

Anal. Sci. (1)

J. Li, W. Tan, K. Wang, D. Xiao, X. Yang, X. He, and Z. Tang, “Ultrasensitive Optical DNA Biosensor Based on Surface Immobilization of Molecular Beacon by a Bridge Structure,” Anal. Sci. 17(10), 1149–1153 (2001).
[Crossref]

Angew. Chem. Int. Ed. (1)

J. F. Lovell, H. Jin, K. K. Ng, and G. Zheng, “Programmed Nanoparticle Aggregation Using Molecular Beacons,” Angew. Chem. Int. Ed. 49, 7917–7919 (2010).
[Crossref]

Angew. Chem. Int. Ed. Engl. (1)

G. Han, C.-C. You, B. Kim, R. S. Turingan, N. S. Forbes, C. T. Martin, and V. M. Rotello, “Light-regulated release of DNA and its delivery to nuclei by means of photolabile gold nanoparticles,” Angew. Chem. Int. Ed. Engl. 45(19), 3165–3169 (2006).
[Crossref] [PubMed]

Appl. Phys. Lett. (2)

T. Nishimura, Y. Ogura, and J. Tanida, “Fluorescence resonance energy transfer-based molecular logic circuit using a DNA scaffold,” Appl. Phys. Lett. 101(23), 233703 (2012).
[Crossref]

T. Nishimura, R. Fujii, Y. Ogura, and J. Tanida, “Optically controllable molecular logic circuits,” Appl. Phys. Lett. 107(1), 013701 (2015).
[Crossref]

Bioconjugate Chem. (1)

J. F. Lovell, J. Chen, E. Huynh, M. T. Jarvi, B. C. Wilson, and G. Zheng, “Facile Synthesis of Advanced Photodynamic Molecular Beacon Architectures,” Bioconjugate Chem. 21, 1023–1025 (2010).
[Crossref]

Biomater. Sci. (1)

T. Sakamoto, A. Shigeno, Y. Ohtaki, and K. Fujimoto, “Photo-regulation of constitutive gene expression in living cells by using ultrafast photo-cross-linking oligonucleotides,” Biomater. Sci. 2(9), 1154–1157 (2014).
[Crossref]

Biomaterials (1)

T.-L. Tsai, D.-B. Shieh, C.-S. Yeh, Y. Tzeng, K. Htet, K.-S. Chuang, J. R. Hwu, and W.-C. Sui, “The down regulation of target genes by photo activated DNA nanoscissors,” Biomaterials 31(25), 6545–6554 (2010).
[Crossref] [PubMed]

Bioorg. Med. Chem. (1)

S. Yamashita, H. Fukushima, Y. Akiyama, Y. Niidome, T. Mori, Y. Katayama, and T. Niidome, “Controlled-release system of single-stranded DNA triggered by the photothermal effect of gold nanorods and its in vivo application,” Bioorg. Med. Chem. 19(7), 2130–2135 (2011).
[Crossref] [PubMed]

Chem. Phys. Lett. (1)

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Figures (9)

Fig. 1
Fig. 1

Schematic diagram of optically controlled release of ssDNA using BHQs.

Fig. 2
Fig. 2

Experimental setup. f: focal length.

Fig. 3
Fig. 3

Fluorescence intensity of Alexa 405 measured around the two-minute excitation of the BHQs. The gray area indicates the BHQ-excitation period.

Fig. 4
Fig. 4

(a) Time course of the release ratio α for various excitation powers. (b) Variation of α due to the BHQ excitation power. Error bars indicate the standard deviation of three measurements.

Fig. 5
Fig. 5

Variation of the release raito α during repeated operations. The grey areas indicate the periods of BHQ excitation.

Fig. 6
Fig. 6

Scheme of reaction for opening of hairpin DNA using optically-released ssDNA.

Fig. 7
Fig. 7

Fluorescence intensity measured during reaction to open the hairpin DNA based on optically controlled release of the opening DNA. Error bars indicate the maximum and minimum values among the three measurements.

Fig. 8
Fig. 8

Experimental setup used for controlled release on a glass substrate.

Fig. 9
Fig. 9

(a) Bright field image of substrate. The position of the focused spot is indicated by an arrow. Fluorescence images captured (b) before and (c) after 10 s period of excitation, and (d) the difference image between them. Scale bar: 5 μm. (e) Intensity profile of the fluorescence distribution shown in (d).

Tables (1)

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Table 1 Sequences and modifications of DNAs used in the experiments.

Equations (5)

Equations on this page are rendered with MathJax. Learn more.

p d = p abs η d ,
p abs = σ A P ex ,
P ex ( sat ) = h v 1 τ A σ ,
p d = h v 1 τ η d .
α = I I d I s I d .

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