* Indicates listing on more than one bibliography.
*N.C. Seeman, Physical Models for Exploring DNA
Topology. Journal of Biomolecular Structure and Dynamics 5, 997-1004 (1988).
J.E. Mueller, S. M. Du and N.C. Seeman, The Design and
Synthesis of a Knot from Single-Stranded DNA, Journal of the American Chemical
Society 113, 6306-6308 (1991).
J. Chen and N.C. Seeman, The Electrophoretic
Properties of a DNA Cube and its Sub-Structure Catenanes Electrophoresis 12,
607-611 (1991).
S.M. Du and N.C. Seeman, The Synthesis of a DNA Knot
Containing both Positive and Negative Nodes, Journal of the American Chemical
Society 114, 9652-9655 (1992).
*S.M. Du, S. Zhang and N.C. Seeman, DNA Junctions,
Antijunctions and Mesojunctions, Biochemistry 31, 10955-10963 (1992).
N.C. Seeman, The Design of Single-Stranded Nucleic
Acid Knots, Molecular Engineering 2, 297-307 (1992).
H. Wang, S.M. Du and N.C. Seeman, Tight
Single-Stranded DNA Knots, Journal of Biomolecular Structure and Dynamics 10,
853-863 (1993).
*N.C. Seeman, J. Chen, S.M. Du, J.E. Mueller, Y.
Zhang, T.-J. Fu, H. Wang, Y. Wang, and S. Zhang, Synthetic DNA Knots and
Catenanes, New Journal of Chemistry 17, 739-755 (1993).
*N.C. Seeman and N.R. Kallenbach, DNA Branched
Junctions, Annual Review of Biophysics and Biomolecular Structure 23, 53-86
(1994).
S.M. Du and N.C. Seeman, The Construction of a Trefoil
Knot from a DNA Branched Junction Motif, Biopolymers 34, 31-37 (1994).
*T-J. Fu, Y.-C. Tse-Dinh, and N.C. Seeman, Holliday
Junction Crossover Topology, Journal of Molecular Biology 236, 91-105 (1994).
*N.C. Seeman, Y. Zhang, T.-J. Fu, S. Zhang, Y. Wang
and J. Chen, Chemical Synthesis of Nanostructures, Biomolecular Materials by
Design: Materials Research Society Symposium Proceedings 330, 45-56 (1994).
*N.C. Seeman, Y. Zhang, S.M. Du, H. Wang, J.E.
Mueller, Y. Wang, B. Liu, J. Qi and J. Chen, The Control of DNA Structure and
Topology: An Overview., Molecularly Designed Ultrafine/Nanostructured
Materials: Materials Research Society Symposium Proceedings 351 57-66 (1994).
S.M. Du, H. Wang, Y.C. Tse-Dinh and N.C. Seeman,
Topological Transformations of Synthetic DNA Knots, Biochemistry 34, 673-682
(1995).
H. Wang and N.C. Seeman, Structural Domains of DNA
Mesojunctions, Biochemistry 34, 920-929 (1995).
S.M. Du, B.D. Stollar, and N.C. Seeman, A Synthetic
DNA Molecule in Three Knotted Topologies, Journal of the American Chemical
Society 117, 1194-1200 (1995).
*N.C. Seeman, Molecular Craftwork with DNA, The
Chemical Intelligencer 1(3), 38-47 (1995).
*N.C. Seeman, Y. Zhang, S.M. Du and J. Chen,
Construction of DNA Polyhedra and Knots Through Symmetry Minimization, In:
Supramolecular Stereochemistry, ed. by J. Siegel, NATO Advanced Research
Workshops Series, Kluwer, Dordrecht, 27-32 (1995).
E. Flapan and N.C. Seeman, A Topological Rubber Glove
Obtained from a Synthetic Single Stranded DNA Molecule, Journal of the Chemical
Society, Chemical Communications, 2249-2250 (1995).
*N.C. Seeman, H. Wang, J. Qi., X.J. Li, X.P. Yang, Y.
Wang, H. Qiu, B. Liu, Z. Shen, W. Sun, F. Liu, J.J. Molenda, S.M. Du, J. Chen,
J.E. Mueller., Y. Zhang, T.-J. Fu, and S. Zhang, DNA Nanotechnology and
Topology. In: Biological Structure and Dyinamics, ed.
by R.H. Sarma and M.H. Sarma, Adenine Press, New York, vol. 2, pp. 319-341
(1996).
*J.A. Sekiguchi, N.C. Seeman and S. Shuman, Asymmetric
Resolution of Holliday Junctions by Eukaryotic DNA Topoisomerase I. Proceedings
of the National Academy of Sciences (USA) 93, 785-789 (1996).
H. Wang, R.J. Di Gate, and N.C. Seeman, An RNA
Topoisomerase, Proceedings of the National Academy of Sciences (USA) 93,
9477-9482 (1996).
*C. Mao, W. Sun and N.C. Seeman, Construction of
Borromean Rings from DNA, Nature 386, 137-138 (1997).
*N.C.Seeman, J. Chen, Y.
Zhang, T.-J. Fu, X. Li, X. Yang, Y. Wang, J. Qi, B. Liu and F. Liu, Control of
Structure and Topology in DNA Nanotechnology. In: Molecular Nanotechnology:
Biological Approaches and Novel Applications, ed. by S.A. Minden, IBC Libraries,
Southborough, MA, Chapter 2.2 (31 pages) (1997).
*A. V. Vologodskii, X. Yang and N.C. Seeman,
Non-Complementary DNA Helical Structure Induced by Positive Torsional Stress,
Nucleic Acids Resesrch 26, 1503-1508 (1998).
H. Wang, R.J. Di Gate and N.C. Seeman, E. coli DNA The
Construction of an RNA Knot and its Role in Demonstrating that Topoisomerase
III is an RNA Topoisomerase. Structure, Motion, Interaction and Expression of
Biological Macromolecules, ed by R.H. Sarma and M.H.
Sarma, Adenine Press, New York, pp. 103-116 (1998).
*N.C. Seeman, H. Wang, B. Liu, J. Qi, X. Li, X. Yang,
F. Liu, W. Sun, Z. Shen, Y. Wang, R. Sha, C. Mao, S. Zhang, T.-J. Fu, S. M. Du,
J.E. Mueller, Y. Zhang and J. Chen, The Perils of Polynucleotides: The
Experimental Gap Between the Design and Assembly of Unusual DNA Structures, In:
DNA Based Computers II, ed.by L.F. Landweber and E.B.
Baum, Am. Math. Soc., Providence, pp. 215-233 (1998).
*N.C. Seeman, Nucleic Acid Nanostructures and
Topology. Angewandte Chemie. 110, 3408-3428 (1998); Angewandte Chemie
International Edition 37, 3220-3238 (1998).
*N.C. Seeman, Synthetic DNA Topology, Molecular
Catenanes, Rotaxanes and Knots, ed. by J.-P. Sauvage and C. Dietrich-Buchecker,
Wiley-VCH, Weinheim pp. 323-356 (1999).
*N.C. Seeman, DNA Engineering and its Application to
Nanotechnology, Trends in Biotechnology 17, 437-443 (1999).
*W. Sun, C. Mao, H. Iwasaki, B. Kemper and N.C.
Seeman, No Braiding of Holliday Junctions in Positively Supercoiled DNA
Molecules, Journal of Molecular Biology 294, 683-699 (1999).
*N.C. Seeman, DNA Nanotechnology: From Topological
Control to Structural Control, in Pattern Formation in Biology, Vision and
Dynamics, ed. by A.Carbone, M.Gromov, P.Pruzinkiewicz, World Scientific
Publishing Company, Singapore, 271-309 (2000).
*N.C. Seeman, In the Nick of Space: Generalized
Nucleic Acid Complementarity and the Development of DNA Nanotechnology, Synlett
2000, 1536-1548 (2000).
*N.C. Seeman, DNA Nicks and Nodes and Nanotechnology,
NanoLetters 1, 22-26 (2001).
*H. Yan, X. Zhang, Z. Shen and N.C. Seeman, A Robust
DNA Mechanical Device Controlled by Hybridization Topology, Nature 415, 62-65
(2002).
*X. Zhang, H. Yan, Z. Shen and N.C. Seeman, Paranemic
Cohesion of Topologically-Closed DNA Molecules, J Am. Chem. Soc.124,
12940-12941 (2002).
*Z. Shen, H. Yan, T. Wang and N.C. Seeman, Paranemic
Crossover DNA: A Generalized
Holliday Structure with Applications in Nanotechnology J. Am. Chem. Soc. 126,
1666-1674 (2004).
* J.J. Birac, W.B. Sherman,
J. Kopatsch, P.E. Constantinou and N.C. Seeman, GIDEON, A Program for Design in
Structural DNA Nanotechnology, J. Mol.
Graphics & Modeling 25, 470-480 (2006).
N.C. Seeman, Synthetic Single-Stranded DNA
Topology, Applications of Knot Theory,
D. Buck & E. Flapan, Eds, Am. Math. Soc. Proc. Symp. Applied. Math. 66 121-153 (2009).
*X. Wang, X. Zhang, C.
Mao & N.C. Seeman, Double-Stranded
DNA Homology Produces a Physical Signature, Proc. Nat. Acad. Sci. (USA) 107, 12547-12552 (2010).
T. Ciengshin,
R. Sha & N.C. Seeman, Automatic Molecular Weaving Prototyped Using
Single-Stranded DNA, Angew. Chemie Int. Ed.
50, 4419-4422 (2011).
N.A. Baas & N. C. Seeman, On the Chemical Synthesis
of New Topological Structures, J. Math.
Chem. 50, 220-232 (2012).
* Y. Liu, R. Wang, L. Ding, R. Sha, N.C. Seeman & J.W.
Canary, Templated Synthesis of Nylon Nucleic
Acids and Characterization by Nuclease Digestion, Chem. Sci., 3, 1930-1937 (2012).
* L. Feng, R. Sha,
N.C. Seeman and P.M. Chaikin,
Topological Interaction by Entangled DNA Loops, Phys. Rev. Lett. 109, 188301 (2012).
*D.A. Rusling, A.R. Chandrasekaran,
Y. Ohayon, T.Brown, K.R.
Fox, R. Sha, C. Mao & N.C. Seeman,
Functionalizing Designer DNA Crystals with a Triple-Helical Veneer, Angew. Chemie Int. Ed.
53, 4060-4063 (2014), DOI: 10.1002/anie.201309914.
*D.D. Li, X.J. Wang, F. Shi, R. Sha, N.C. Seeman, J.W. Canary, Templated DNA Ligation with Thiol
Chemistry, Org. & Biomol.
Chem. 12, 8823-8827 (2014).
*N A. Baas, N.C. Seeman,
A. Stacey, Synthesizing Topological Links, J.
Math. Chem., 53, 183-199 (2015) DOI
10.1007/s10910-014-0420-3.*Y. Ohayon,
R. Sha, O. Flint, B. Chakraborty,
H.K. Subramanian, J. Zheng, A.R. Chandrasekaran,
H.O. Abdallah, T. Wang, X. Wang, X. Zhang, N.C. Seeman, Covalent Linkage of One-Dimensional DNA Arrays
Bonded by Paranemic Cohesion, ACS Nano 9, 10296-10303 (2015).
*Y. Ohayon,
R. Sha, O. Flint, A.R. Chandrasekaran,
H.O. Abdallah, T. Wang, X. Wang, X. Zhang, N.C. Seeman, Topological Linkage of DNA Tiles Bonded by Paranemic Cohesion, ACS
Nano 9, 10304-10312 (2015).
*H.O.
Abdallah, Y.P. Ohayon, A.R.
Chandrasekaran, R. Sha,
K.R. Fox, T. Brown, D.A. Rusling, C. Mao, N.C. *Seeman, Stabilization of Self-Assembled DNA Crystals by
Triplex-Directed Photo-Crosslinking, Chem. Comm., 52, 8014-8017 DOI: 10.1039/c6cc03695c
(2016).
*J.
A. Ellis-Monaghan, G. Pangborn, N.C. Seeman, S. Blakely, C. Disher, M.
Falcigno, B. Healy, B. Singh, M. Westland, Design
Tools for Reporter Strands and DNA Origami Scaffold Strands, Theor. Computer Sci. 671, 69-78 (2017).
*C. Hernandez, J.J. Birktoft,
Y.P. Ohayon, A.R. Chandrasekaran,
H. Abdallah, R. Sha, V. Stojanoff, C. Mao & N.C. Seeman,
Stressed DNA: Self-Assembly of 3D Crystals Containing a Torsionally-Stressed
Component, Cell Chem. Biol. 24,
1401-1406 (2017).
*M.M. Ferrari, A. Cook, A. Houlihan, R. Rouleau, N.C. Seeman, G. Pangborn, J. Ellis-Monaghan,
Design Formalism for DNA Self-Assembly of Polyhedral Skeletons using Rigid
Tiles, J. Math. Chem., 56, 1365-1392
(2018), DOI 10.1007/s10910-018-0858-9.
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