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[AFF+14]

E.L. Albuquerque, U.L. Fulco, V.N. Freire, E.W.S. Caetano, M.L. Lyra, and F.A.B.F. De Moura. DNA-based nanobiostructured devices: The role of quasiperiodicity and correlation effects. Physics Reports, 535:139–209, 2014. doi:10.1016/j.physrep.2013.10.004.

[AGB16]

Anna R. Arnold, Michael A. Grodick, and Jacqueline K. Barton. DNA Charge Transport: from Chemical Principles to the Cell. Cell Chemical Biology, 23:183–197, 2016. doi:10.1016/j.chembiol.2015.11.010.

[Bit06]

Eric R. Bittner. Lattice theory of ultrafast excitonic and charge-transfer dynamics in DNA. Journal of Chemical Physics, 125:094909, 2006. doi:10.1063/1.2335452.

[Bit07]

Eric R. Bittner. Frenkel exciton model of ultrafast excited state dynamics in AT DNA double helices. Journal of Photochemistry and Photobiology A: Chemistry, 190:328–334, 2007. doi:10.1016/j.jphotochem.2006.12.007.

[BB02]

Elizabeth M Boon and Jacqueline K Barton. Charge transport in DNA. Current Opinion in Structural Biology, 12:320–329, 2002. doi:https://doi.org/10.1016/S0959-440X(02)00327-5.

[BWSV+19]

Susannah Bourne Worster, Clement Stross, Felix M. W. C. Vaughan, Noah Linden, and Frederick R. Manby. Structure and efficiency in bacterial photosynthetic light harvesting. The Journal of Physical Chemistry Letters, 10(23):7383–7390, 2019. doi:10.1021/acs.jpclett.9b02625.

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[Cha07]

T. Chakraboty. Charge Migration in DNA: Perspectives from Physics, Chemistry, and Biology. Springer, Berlin, Heidelberg, 2007.

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C. Crespo-Hernandez, B. Cohen, P. Hare, and B. Kohler. Ultrafast Excited-State Dynamics in Nucleic Acids. Chem. Rev., 104:1977–2020, 2004.

[CHCK05]

C. Crespo-Hernandez, B. Cohen, and B. Kohler. Base stacking controls excited-state dynamics in A·T DNA. Nature, 436:1141–1144, 2005. doi:10.1038/nature03933.

[DHB97]

Peter J. Dandliker, R. Erik Holmlin, and Jacqueline K. Barton. Oxidative Thymine Dimer Repair in the DNA Helix. Science, 275:1465–1468, 1997. doi:10.1126/science.275.5305.1465.

[DNB98]

Peter J. Dandliker, Megan E. Núñez, and Jacqueline K. Barton. Oxidative Charge Transfer To Repair Thymine Dimers and Damage Guanine Bases in DNA Assemblies Containing Tethered Metallointercalators. Biochemistry, 37:6491–6502, 1998. doi:10.1021/bi980041w.

[DWT+81]

H R Drew, R M Wing, T Takano, C Broka, S Tanaka, K Itakura, and R E Dickerson. Structure of a b-dna dodecamer: conformation and dynamics. Proceedings of the National Academy of Sciences, 78:2179–2183, 1981. doi:10.1073/pnas.78.4.2179.

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[ECS02]

R. G. Endres, D. L. Cox, and R. R. P. Singh. Electronic properties of DNA: structural and chemical influence on the quest for high conductance and charge transfer. 2002. URL: https://arxiv.org/abs/cond-mat/0201404, arXiv:cond-mat/0201404.

[ECS04]

R. G. Endres, D. L. Cox, and R. R. P. Singh. Colloquium: The quest for high-conductance DNA. Rev. Mod. Phys., 76:195, 2004.

[GB10]

Joseph C. Genereux and Jacqueline K. Barton. Mechanisms for DNA charge transport. Chemical Reviews, 110:1642–1662, 2010. doi:10.1021/cr900228f.

[GAK+01]

B. Giese, J. Amaudrut, AK. Köhler, and others. Direct observation of hole transfer through DNA by hopping between adenine bases and by tunnelling. Nature, 412:318–320, 2001. doi:10.1038/35085542.

[Gie02]

Bernd Giese. Long-distance electron transfer through dna. Annual Review of Biochemistry, 71(1):51–70, 2002. doi:10.1146/annurev.biochem.71.083101.134037.

[GWS+99]

Bernd Giese, Stephan Wessely, Martin Spormann, Ute Lindemann, Eric Meggers, and Maria E. Michel-Beyerle. On the Mechanism of Long-Range Electron Transfer through DNA. Angewandte Chemie International Edition, 38:996–998, 1999. doi:https://doi.org/10.1002/(SICI)1521-3773(19990401)38:7<996::AID-ANIE996>3.0.CO;2-4.

[Goo01]

David S. Goodsell. The molecular perspective: ultraviolet light and pyrimidine dimers. The Oncologist, 6:298–299, 2001. doi:10.1634/theoncologist.6-3-298.

[GCW+10]

R. Gutiérrez, R. Caetano, P. B. Woiczikowski, T. Kubar, M. Elstner, and G. Cuniberti. Structural fluctuations and quantum transport through DNA molecular wires: A combined molecular dynamics and model hamiltonian approach. New Journal of Physics, 12:023022, 2010. doi:10.1088/1367-2630/12/2/023022.

[GCW+09]

R. Gutiérrez, R. A. Caetano, B. P. Woiczikowski, T. Kubar, M. Elstner, and G. Cuniberti. Charge transport through biomolecular wires in a solvent: Bridging molecular dynamics and model hamiltonian approaches. Physical Review Letters, 102:208102, 2009. doi:10.1103/PhysRevLett.102.208102.

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W.A. Harrison. Electronic Structure and the Properties of Solids: The Physics of the Chemical Bond. Dover, New York, NY, USA, 2nd edition, 1989.

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W.A. Harrison. Elementary Electronic Structure. World Scientific, River Edge, NJ, USA, 1999.

[HKS10]

L.G.D. Hawke, G. Kalosakas, and C. Simserides. Electronic parameters for charge transfer along DNA. The European Physical Journal E, 32:291–305, 2010. doi:10.1140/EPJE/I2010-10650-Y.

[HRA24]

Dennis Herb, Mirko Rossini, and Joachim Ankerhold. Ultrafast excitonic dynamics in DNA: Bridging correlated quantum dynamics and sequence dependence. Physical Review E, 109:064413, 6 2024. doi:10.1103/PhysRevE.109.064413.

[JNN12]

J. R. Johansson, P. D. Nation, and F. Nori. Qutip: an open-source python framework for the dynamics of open quantum systems. Computer Physics Communications, 183(8):1760–1772, August 2012. doi:10.1016/j.cpc.2012.02.021.

[JNN13]

J. R. Johansson, P. D. Nation, and F. Nori. Qutip 2: a python framework for the dynamics of open quantum systems. Computer Physics Communications, 184(4):1234–1240, April 2013. doi:10.1016/j.cpc.2012.11.019.

[KE08]

Tomáš Kubař and Marcus Elstner. What Governs the Charge Transfer in DNA? The Role of DNA Conformation and Environment. The Journal of Physical Chemistry B, 112:8788–8798, 2008. doi:10.1021/jp803661f.

[LCM+16]

K. Lambropoulos, M. Chatzieleftheriou, A. Morphis, K. Kaklamanis, R. Lopp, M. Theodorakou, M. Tassi, and C. Simserides. Electronic structure and carrier transfer in B-DNA monomer polymers and dimer polymers: Stationary and time-dependent aspects of a wire model versus an extended ladder model. Physical Review E, 94:062403, 2016. doi:10.1103/PhysRevE.94.062403.

[LKM+16]

K. Lambropoulos, K. Kaklamanis, A. Morphis, M. Tassi, R. Lopp, G. Georgiadis, M. Theodorakou, M. Chatzieleftheriou, and C. Simserides. Wire and extended ladder model predict THz oscillations in DNA monomers, dimers and trimers. Journal of Physics Condensed Matter, 28:495101, 2016. doi:10.1088/0953-8984/28/49/495101.

[LS19]

Konstantinos Lambropoulos and Constantinos Simserides. Tight-binding modeling of nucleic acid sequences: Interplay between various types of order or disorder and charge transport. Symmetry, 2019. doi:10.3390/sym11080968.

[Low63]

Per-Olov Löwdin. Proton Tunneling in DNA and its Biological Implications. Rev. Mod. Phys., 35:724, 1963. doi:10.1103/RevModPhys.35.724.

[MLS23]

Marilena Mantela, Konstantinos Lambropoulos, and Constantinos Simserides. Charge transport properties of ideal and natural dna segments, as mutation detectors. Physical Chemistry Chemical Physics, 25(11):7750–7762, 2023. URL: http://dx.doi.org/10.1039/D3CP00268C, doi:10.1039/d3cp00268c.

[MSF21]

Marilena Mantela, Constantinos Simserides, and Rosa Di Felice. LCAO electronic structure of nucleic acid bases and other heterocycles and transfer integrals in B-DNA, including structural variability. Materials, 14:4930, 2021. doi:10.3390/ma14174930.

[MA05]

H. Mehrez and M. P. Anantram. Interbase electronic coupling for transport through DNA. Phys. Rev. B, 71:115405, 2005. doi:10.1103/PhysRevB.71.115405.

[MdLHS+09]

Chris T. Middleton, Kimberly de La Harpe, Charlene Su, Yu Kay Law, Carlos E. Crespo-Hernández, and Bern Kohler. Dna excited-state dynamics: from single bases to the double helix. Annual Review of Physical Chemistry, 60:217–239, 2009. doi:10.1146/annurev.physchem.59.032607.093719.

[MRLAG08]

Masoud Mohseni, Patrick Rebentrost, Seth Lloyd, and Alán Aspuru-Guzik. Environment-assisted quantum walks in photosynthetic energy transfer. The Journal of Chemical Physics, 2008. doi:10.1063/1.3002335.

[MAJ+93]

C. J. Murphy, M. R. Arkin, Y. Jenkins, N. D. Ghatlia, S. H. Bossmann, N. J. Turro, and J. K. Barton. Long-Range Photoinduced Electron Transfer Through a DNA Helix. Science, 262:1025–1029, 1993. doi:10.1126/science.7802858.

[RASA24]

Mirko Rossini, Ole Ammerpohl, Reiner Siebert, and Joachim Ankerhold. Effect of environmental noise on charge diffusion in dna: towards modeling its potential epigenetic impact in live processes. 2024. doi:10.48550/arxiv.2407.14252.

[Rot06]

Paul W. K. Rothemund. Folding DNA to create nanoscale shapes and patterns. Nature, 440:297–302, 2006. doi:10.1038/nature04586.

[SGZ15]

Wolfgang J. Schreier, Peter Gilch, and Wolfgang Zinth. Early Events of DNA Photodamage. Annual Review of Physical Chemistry, 66:497–519, 2015. doi:10.1146/annurev-physchem-040214-121821.

[SAR+23]

Reiner Siebert, Ole Ammerpohl, Mirko Rossini, Dennis Herb, Sven Rau, Martin Plenio, Fedor Jelezko, and Joachim Ankerhold. A quantum physics layer of epigenetics: a hypothesis deduced from charge transfer and chirality-induced spin selectivity of DNA. Clin. Epigenet., 15:145, 2023. doi:10.1186/s13148-023-01560-3.

[Sim14]

Constantinos Simserides. A systematic study of electron or hole transfer along DNA dimers, trimers and polymers. Chemical Physics, 440:31–41, 2014. doi:10.1016/j.chemphys.2014.05.024.

[SK54]

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[TSdLH+08]

Tomohisa Takaya, Charlene Su, Kimberly de La Harpe, Carlos E. Crespo-Hernández, and Bern Kohler. Uv excitation of single dna and rna strands produces high yields of exciplex states between two stacked bases. Proceedings of the National Academy of Sciences, 105:10285–10290, 2008. doi:10.1073/pnas.0802079105.

[Tri13]

Frank Trixler. Quantum Tunnelling to the Origin and Evolution of Life. Current Organic Chemistry, 17:1758–1770, 2013. doi:10.2174/13852728113179990083.

[Wan18]

Kun Wang. DNA-Based Single-Molecule Electronics: From Concept to Function. Journal of Functional Biomaterials, 9:8, 2018. doi:10.3390/jfb9010008.

[WC53]

J. D. Watson and F. H. C. Crick. Molecular Structure of Nucleic Acids: A Structure for Deoxyribose Nucleic Acid. Nature, 171:737–738, 1953. doi:10.1038/171737a0.

[ZHP+20]

Roman Zhuravel, Haichao Huang, Georgia Polycarpou, Savvas Polydorides, Phani Motamarri, Liat Katrivas, Dvir Rotem, Joseph Sperling, Linda A. Zotti, Alexander B. Kotlyar, Juan Carlos Cuevas, Vikram Gavini, Spiros S. Skourtis, and Danny Porath. Backbone charge transport in double-stranded DNA. Nature Nanotechnology, 15:836–840, 2020. doi:10.1038/s41565-020-0741-2.

[ZTB18]

Theodore J. Zwang, Edmund C. M. Tse, and Jacqueline K. Barton. Sensing DNA through DNA Charge Transport. ACS Chemical Biology, 13:1799–1809, 2018. doi:10.1021/acschembio.8b00347.