This chapter covers the papers which make up the foundation of this thesis. The papers can be found through the references on page III. Many of the themes have already been discussed in the previous chapters and I will refer back to these discussions and also try to bring in some new aspects. I have decided to divide the chapter into three parts covering three different themes.
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Hannestad JK, Sandin P, Albinsson B (2008) Self-assembled DNA photonic wire for long-range energy transfer. J Am Chem Soc 130:15889–15895
3.
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Cohen JD, Sadowski JP, Dervan PB (2008) Programming multiple protein patterns on a single DNA nanostructure. J Am Chem Soc 130:402
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Börjesson K, Preus S, El-Sagheer AH, Brown T, Albinsson B, Wilhelmsson LM (2009) Nucleic acid base analog fret-pair facilitating detailed structural measurements in nucleic acid containing systems. J Am Chem Soc 131:4288–4293
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Iqbal A, Arslan S, Okumus B, Wilson TJ, Giraud G, Norman DG, Ha T, Lilley DMJ (2008) Orientation Dependence in Fluorescent Energy Transfer between Cy3 and Cy5 Terminally Attached to Double-Stranded Nuclelic Acids. Proc Natl Acad Sci USA 105:11176–11181
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10.
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11.
Hannestad JK, Gerrard SR, Brown T, Albinsson B (2011) Self-assembled DNA-based fluorescence waveguide with selectable output. Small 7:3178–3185
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12.
Tumpane J, Sandin P, Kumar R, Powers VEC, Lundberg EP, Gale N, Baglioni P, Lehn JM, Albinsson B, Lincoln P, Wilhelmsson LM, Brown T, Nordén B (2007) Addressable high-information-density DNA nanostructures. Chem Phys Lett 440:125–129
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13.
Stein IH, Steinhauer C, Tinnefeld P (2011) Single-molecule four-color fret visualizes energy-transfer paths on DNA origami. J Am Chem Soc 133:4193–4195
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14.
Dutta PK, Varghese R, Nangreave J, Lin S, Yan H, Liu Y (2011) DNA-directed artificial light-harvesting antenna. J Am Chem Soc 133:11985–11993
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15.
Börjesson K, Tumpane J, Ljungdahl T, Wilhelmsson LM, Nordén B, Brown T, Mårtensson J, Albinsson B (2009) Membrane-anchored DNA assembly for energy and electron transfer. J Am Chem Soc 131:2831–2839
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16.
Benvin AL, Creeger Y, Fisher GW, Ballou B, Waggoner AS, Armitage BA (2007) Fluorescent DNA nanotags: supramolecular fluorescent labels based on intercalating dye arrays assembled on nanostructured DNA templates. J Am Chem Soc 129:2025–2034
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17.
Özhalıcı-Ünal H, Armitage BA (2009) Fluorescent DNA nanotags based on a self-assembled DNA tetrahedron. ACS Nano 3:425–433
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18.
Börjesson K, Wiberg J, El-Sagheer AH, Ljungdahl T, Mårtensson J, Brown T, Nordén B, Albinsson B (2010) Functionalized nanostructures: redox-active porphyrin anchors for supramolecular DNA assemblies. ACS Nano 4:5037–5046
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19.
Woller JG, Börjesson K, Svedhem S, Albinsson B (2012) Reversible hybridization of DNA anchored to a lipid membrane via porphyrin. Langmuir 28:1944–1953
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20.
Börjesson K, Lundberg EP, Woller JG, Nordén B, Albinsson B (2011) Soft-surface DNA nanotechnology: DNA constructs anchored and aligned to lipid membrane. Angew Chem Int Ed 50:8312–8315
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21.
Börjesson K, Woller JG, Parsa E, Mårtensson J, Albinsson B (2012) A bioinspired self assembled dimeric porphyrin pocket that binds electron accepting ligands. Chem Commun 48:1793–1795
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22.
Martinez AW, Phillips ST, Whitesides GM (2008) Three-dimensional microfluidic devices fabricated in layered paper and tape. Proc Nat Acad Sci USA 105:19606–19611
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23.
Chen D, Du WB, Liu Y, Liu WS, Kuznetsov A, Mendez FE, Philipson LH, Ismagilov RF (2008) The chemistrode: a droplet-based microfluidic device for stimulation and recording with high temporal, spatial, and chemical resolution. Proc Nat Acad Sci USA 105:16843–16848
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24.
Edgar JS, Milne G, Zhao Y, Pabbati CP, Lim DSW, Chiu DT (2009) Compartmentalization of chemically separated components into droplets. Angew Chem Int Ed 48:2719–2722
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25.
Jeffries GDM, Kuo JS, Chiu DT (2007) Dynamic modulation of chemical concentration in an aqueous droplet. Angew Chem Int Ed 46:1326–1328
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26.
Sott K, Lobovkina T, Lizana L, Tokarz M, Bauer B, Konkoli Z, Orwar O (2006) Controlling enzymatic reactions by geometry in a biomimetic nanoscale network. Nano Lett 6:209–214
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27.
Bolinger PY, Stamou D, Vogel H (2008) An integrated self-assembled nanofluidic system for controlled biological chemistries. Angew Chem Int Ed 47:5544–5549
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28.
Czolkos I, Erkan Y, Dommersnes P, Jesorka A, Orwar O (2007) Controlled formation and mixing of two-dimensional fluids. Nano Lett 7:1980–1984
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29.
Erkan Y, Halma K, Czolkos I, Jesorka A, Dommersnes P, Kumar R, Brown T, Orwar O (2008) Controlled release of chol-teg-DNA from nano- and micropatterned su-8 surfaces by a spreading lipid film. Nano Lett 8:227–231
30.
Nagle JF, Tristram-Nagle S (2000) Structure of lipid bilayers. Biochim Biophys Acta 1469:159–195
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Czolkos I, Guan J, Orwar O, Jesorka A (2011) Flow control of thermotropic lipid monolayers. Soft Matter 7:6926–6933
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32.
Czolkos I, Hannestad JK, Jesorka A, Kumar R, Brown T, Albinsson B, Orwar O (2009) Platform for controlled supramolecular nanoassembly. Nano Lett 9:2482–2486
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33.
Czolkos I, Hakonen B, Orwar O, Jesorka A (2012) High-resolution micropatterned teflon af substrates for biocompatible nanofluidic devices. Langmuir 28:3200–3205
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34.
Chan YHM, Lenz P, Boxer SG (2007) Kinetics of DNA-mediated docking reactions between vesicles tethered to supported lipid bilayers. Proc Natl Acad Sci USA 104:18913–18918
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35.
Monti S, Cacelli I, Ferretti A, Prampolini G, Barone V (2010) Simulating DNA hybridization on an amine-functionalized silicon substrate. J Phys Chem B 114:8341–8349
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