Research Output 1960 2019

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Chapter (peer-reviewed)

Visualization of chemical databases using the singular value decomposition and truncated-Newton minimalization

Xie, D. & Schlick, T., 2000, Optimization in computational chemistry and molecular biology: Local and global approaches. Floudas, C. A. & Pardalos, P. (eds.). Dordrecht, The Netherlands: Kluwer Academic Publishers, p. 267-286

Research output: Chapter in Book/Report/Conference proceedingChapter (peer-reviewed)

Vibration-rotation-tunneling dynamics of (HF)2 and (HCI)from full dimensional quantum bound state calculations

Bacic, Z. & Qui, Y., 1998, Advances in molecular vibrations and collision dynamics, volume III. Bowman, J. M. & Bacic, Z. (eds.). Greenwhich, Connecticut: JAI Press, Vol. III. p. 183-204

Research output: Chapter in Book/Report/Conference proceedingChapter (peer-reviewed)

Versatile oligo(N-substituted) glycines: The many roles of peptoids in drug discovery

Patch, JA., Kirshenbaum, K., Seurynck, SL., Zuckermann, RN. & Barron, AE., 2004, Pseudo-peptides in drug development. Nielsen, PE. (ed.). Weinheim, Germany: Wiley-VCH, p. 1-31

Research output: Chapter in Book/Report/Conference proceedingChapter (peer-reviewed)

Universal computation via self-assembly of DNA: Some theory and experiements

Winfree, E., Yang, X. & Seeman, N., 1998, DNA based computers II. Landweber, L. F. & Baum, E. B. (eds.). Providence: American Mathematical Society, p. 191-213

Research output: Chapter in Book/Report/Conference proceedingChapter (peer-reviewed)

Tripodal coordination complexes as scaffolds for molecular recognition and catalysis

Canary, J., Allen, C. S., Castagnetto, J. M., Chuang, C. L., Lajmi, A. R., dos Santos, O. & Xu, X., 1998, Molecular recognition and inclusion. Coleman, AW. (ed.). Amsterdam: Kluwer Academic Publishers, p. 179-184

Research output: Chapter in Book/Report/Conference proceedingChapter (peer-reviewed)

Towards artificial antibodies: Protein surface recognition by synthetic receptors

Hamilton, A., Park, H. S., Lin, Q. & Jain, R., 1999, Peptides for the new millenium. Fields, G. B. & Tam, J. P. (eds.). Dordrecht: Kluwer, p. 531

Research output: Chapter in Book/Report/Conference proceedingChapter (peer-reviewed)

Time-dependent quantum dynamics for gas-phase and gas-surface reactions

Zhang, D. H. & Zhang, J., 1996, Dynamics of molecules and chemical reactions. Wyatt, RE. & Zhang, JZH. (eds.). New York: Marcel Dekker, p. 231

Research output: Chapter in Book/Report/Conference proceedingChapter (peer-reviewed)

The tertiary structure of yeast phenylalanine transfer RNA

Kim, S-H., Suddath, F. L., Quigley, G. J., McPherson, A., Sussman, J. L., Wang, AH-J., Seeman, N. & Rich, A., 1975, Structure and conformations of nucleic acids and protein-nucleic acid interactions. Sundaralingam, M. & Rao, S. T. (eds.). Baltimore: University Park Press, p. 7-14

Research output: Chapter in Book/Report/Conference proceedingChapter (peer-reviewed)

The perils of polynucleotides revisted

Seeman, N., 2009, Algorithmic processes. Condon, A., Harel, D., Kok, J. N., Salomaa, A. & Winfree, E. (eds.). Springer, p. 205-214

Research output: Chapter in Book/Report/Conference proceedingChapter (peer-reviewed)

The perils of polynucleotides: The experimental gap between the design and assembly of unusual DNA structures

Seeman, N., Wang, H., Liu, B., Qi, J., Li, X., Yang, X., Liu, F., Sun, W., Shen, Z., Wang, Y., Sha, R., Mao, C., Zhang, S., Fu, T. J., Du, S. M., Mueller, J. E., Zhang, Y. & Chen, J., 1998, DNA based computers II. Landweber, L. F. & Baum, E. B. (eds.). Providence: American Mathematical Society, p. 215-233

Research output: Chapter in Book/Report/Conference proceedingChapter (peer-reviewed)

Theoretical dynamics treatment of chemical reactions

Zhang, J., Li, Y. M., Wang, M. L. & Xiang, Y., 2004, Modern trends in chemical reaction dynamics, part I: Experiment and theory. Yang, X. & Liu, K. (eds.). Singapore: World Scientific Publishing, p. 209

Research output: Chapter in Book/Report/Conference proceedingChapter (peer-reviewed)

The control of DNA structure: From topological modules to geometrical modules

Seeman, N., Qi, J., Li, X., Yang, X., Leontis, N. B., Liu, B., Zhang, Y., Du, S. M. & Chen, J., 1997, Modular chemistry. Michl, J. (ed.). Kluwer, p. 95-104

Research output: Chapter in Book/Report/Conference proceedingChapter (peer-reviewed)

The construction of an RNA knot and its role in demonstrating that E. coli DNA topoisomerase III is an RNA topoisomerase

Wang, H., Di Gate, R. J. & Seeman, N., 1998, Structure, motion, interaction and expression of biological macromolecules. Sarma, R. H. & Sarma, M. H. (eds.). New York: Adenine Press, p. 103-116

Research output: Chapter in Book/Report/Conference proceedingChapter (peer-reviewed)

The carbon monoxide complexation of [Et4N]2[Fe4S4(SPh)4]

Walters, M. & Orme-Johnson, W. H., 1984, Advances in nitrogen fixation research. Veeger, C. & Newton, WE. (eds.). p. 100

Research output: Chapter in Book/Report/Conference proceedingChapter (peer-reviewed)

Synthetic studies on molecular recognition

Hamilton, A., 1991, Frontiers in bioorganic chemistry. Dugas, D. H. (ed.). Berlin: Springer-Verlag, Vol. 2. p. 115-174

Research output: Chapter in Book/Report/Conference proceedingChapter (peer-reviewed)

Synthetic single-stranded DNA topology

Seeman, N., 2009, Applications of knot theory. Buck, D. & Flapan, E. (eds.). p. 121-153 (American Mathematical Society Proceedings of Symposia in Applied Mathematics; vol. 66).

Research output: Chapter in Book/Report/Conference proceedingChapter (peer-reviewed)

Synthetic DNA topology

Seeman, N., 1999, Molecular catenanes, rotaxanes and knots. Sauvage, J-P. & Dietrich-Buchecker, C. (eds.). Weinheim: Wiley-VCH, p. 323-356

Research output: Chapter in Book/Report/Conference proceedingChapter (peer-reviewed)

Surfactant enhanced spreading

Stoebe, T., Hill, R. M., Ward, M., Scriven, LE. & Davis, H. T., 1999, Silicone surfactants. Hill, RM. (ed.). New York: Marcel Dekker, (Surfactant Science Series; vol. 86).

Research output: Chapter in Book/Report/Conference proceedingChapter (peer-reviewed)

Supramolecular polymers engineered via olefin metathesis

Elacqua, E., Ten Brummelhuis, N. & Weck, M., 2015, Handbook of metathesis. Grubbs (ed.). p. 71-92

Research output: Chapter in Book/Report/Conference proceedingChapter (peer-reviewed)

Supramolecular inversion of helical chirality

Holmes, A. E., Barcena, H. S. & Canary, J., 2002, Advances in supramolecular chemistry. Vol. 8. p. 43-78 Invited manuscript

Research output: Chapter in Book/Report/Conference proceedingChapter (peer-reviewed)

Structures, vibrational frequency shifts and photodissociation dynamics of ArnHF clusters

Bacic, Z., 1999, Theory of atomic and molecular clusters. Jellinek, J. (ed.). Berlin: Springer , p. 54-85

Research output: Chapter in Book/Report/Conference proceedingChapter (peer-reviewed)

Structure and transcription of RNA

Kallenbach, N., 1979, Concepts of the structure and function of DNA, chromatin and chromosomes. Dion, A. (ed.). Chicago: Yearbook Medical Publishers, p. 19-40

Research output: Chapter in Book/Report/Conference proceedingChapter (peer-reviewed)

Structure, fluctuations and interactions of the double helix

Kallenbach, N., Mandal, C. M. & Englander, S. W., 1979, Stereodyhnamics of molecular systems. p. 271-282

Research output: Chapter in Book/Report/Conference proceedingChapter (peer-reviewed)

Structure, fluctuations and interactions of base pairs in nucleic acids monitored by NMR, tritium exchange and stopped-flow hydrogen-deuterium exchange measurements

Kallenbach, N., Mandal, C. & Englander, S. W., 1980, Nucleic acid geometry and dynamics. Sarma, R. H. (ed.). p. 233-251

Research output: Chapter in Book/Report/Conference proceedingChapter (peer-reviewed)

Structural control and engineering of nucleic acids

Seeman, N., 1994, Concepts in protein engineering and design. Wrede, P. & Schneider, G. (eds.). Berlin: Walter-de-Gruyter, p. 319-343

Research output: Chapter in Book/Report/Conference proceedingChapter (peer-reviewed)

Stability of the helical nucleic acids

Kallenbach, N., 1974, Quantum statistical mechanics in the natural sciences. Kursunoglu, B., Mintz, S. L. & Windmayer, S. M. (eds.). New York: Plenum Press, p. 95-118

Research output: Chapter in Book/Report/Conference proceedingChapter (peer-reviewed)

Some failures and successes of long-timestep approaches to biomolecular simulations

Schlick, T., 1998, Algorithms for macromolecular modelling. Deuflhard, P., Hermans, J., Leimkuhler, B., Mark, A., Skeel, R. D. & Reich, S. (eds.). Springer-Verlag, p. 227-262 (Lecture Notes in Computational Science and Engineering; vol. 4).

Research output: Chapter in Book/Report/Conference proceedingChapter (peer-reviewed)

Single crystal crystallography for nucleic acid structural studies

Seeman, N., 1980, Geometry and dynamics of nucleic acids. Sarma, R. H. (ed.). New York: Pergamon Press, p. 47-82

Research output: Chapter in Book/Report/Conference proceedingChapter (peer-reviewed)

Single crystal crystallography

Seeman, N., 1979, Stereodynamics of molecular systems. Sarma, R. H. (ed.). New York: Pergamon Press, p. 75-109

Research output: Chapter in Book/Report/Conference proceedingChapter (peer-reviewed)

Simulation of double stranded branch point migration

Seeman, N. & Robinson, B. H., 1981, Biomolecular stereodynamics. Sarma, R. H. (ed.). New York: Adenine Press, p. 279-300

Research output: Chapter in Book/Report/Conference proceedingChapter (peer-reviewed)

Self-assembly as a strategy for artificial receptor design

Linton, B., Goodman, M. S., Jubian, V. & Hamilton, A., 1996, Self-assembly in synthetic chemistry. Wuest, J. (ed.). Kluwer

Research output: Chapter in Book/Report/Conference proceedingChapter (peer-reviewed)

Self-assembling structures based on hydrogen bonding subunits

Zafar, A. & Hamilton, A., 1999, Problems in the synthesis and characterization of large molecular assemblies. Tsoucaris, G. (ed.). Kluwer, p. 67-85

Research output: Chapter in Book/Report/Conference proceedingChapter (peer-reviewed)

Search strategies, minimization algorithms, and molecular dynamics simulations for exploring conformational spaces of nuclear acids

Overton, M., Schlick, T., Hingerty, B. E., Peskin, C. & Broyde, S., 1990, Theoretical biochemistry and molecular biophysics, Volume 1: DNA. Beveridge, D. L. & Lavery, R. (eds.). Guilderland, New York: Adenine Press, p. 39-58

Research output: Chapter in Book/Report/Conference proceedingChapter (peer-reviewed)

Scanning tunneling and atomic force microscopy of electrochemical interfaces

Ward, M. D. & White, H. S., 1996, Modern techniques in electroanalysis. Vanysek, P. (ed.). New York: Wiley, Vol. 139. p. 107-149 43 p.

Research output: Chapter in Book/Report/Conference proceedingChapter (peer-reviewed)

Atomic force microscopy
Scanning

Role of the peptide bond in protein structure and folding

Kallenbach, N., Bell, A. J. & Spek, E. J., 2000, The amide linkage. Greenberg, A., Breneman, C. M. & Liebman, J. F. (eds.). Wiley-Interscience, p. 599-625

Research output: Chapter in Book/Report/Conference proceedingChapter (peer-reviewed)

RNA double helices at atomic resolution

Rich, A. & Seeman, N., 1976, Handbook of biochemistry and molecular biology. Fasman, G. (ed.). 3rd ed. Cleveland: CRC Press, Vol. II. p. 463-469

Research output: Chapter in Book/Report/Conference proceedingChapter (peer-reviewed)

Resonance phenomena in quantal reactive infinite-order sudden calculations

Zhang, J., Abusalbi, N., Baer, M., Kouri, DJ. & Jellinek, J., 1984, ACS symposium series. American Chemical Society, Vol. 263. Chapter 24. p. 457-477

Research output: Chapter in Book/Report/Conference proceedingChapter (peer-reviewed)

Pursuing Laplace's vision on modern computers

Schlick, T., 1996, Proceedings of the IMA program in mathematical biology. Mesirov, J., Schulten, K. & Sumners, D. W. (eds.). New York: Springer-Verlag, p. 219-247 (IMA Volumes in Mathematics and its Applications; vol. 82).

Research output: Chapter in Book/Report/Conference proceedingChapter (peer-reviewed)

Protein surface recognition by synthetic receptors

Lin, Q., Park, H. S., Hamuro, Y. & Hamilton, A., 1999, Supramolecular chemistry: Where it is and where it is going. Urgaro, R. (ed.). Amsterdam: Kluwer, Vol. 527. p. 197-204

Research output: Chapter in Book/Report/Conference proceedingChapter (peer-reviewed)

Protein surface recognition

Salvatella, X., Haack, T., Gairí, M., De Mendoza, J., Peczuh, M. W., Hamilton, A. & Giralt, E., 1999, Protein surface recognition. Pons, M. (ed.). Kluwer, Vol. 526. p. 267-280

Research output: Chapter in Book/Report/Conference proceedingChapter (peer-reviewed)

Protein secondary structure mimetics as modulators of protein-protein and protein-ligand interactions

Hamilton, A., 2005, First reference of chemical biology. Schreiber, S., Kapoor, T. & Wess, G. (eds.). Wiley-VCH

Research output: Chapter in Book/Report/Conference proceedingChapter (peer-reviewed)

Protein recognition of base pairs in a double helix

Rich, A., Seeman, N. & Rosenberg, J. M., 1977, Nucleic acid-protein recognition. Vogel, H. G. (ed.). New York: Academic Press, p. 361-374

Research output: Chapter in Book/Report/Conference proceedingChapter (peer-reviewed)

Protein prenylation in trypanosomatids: A new piggy-back medicinal chemistry target for the development of agents against tropical diseases

Gelb, M. J., Buckner, F. S., Yokoyama, K., Ohkanda, J., Hamilton, A., Nguyen, L., Sebti, S. M. & Van Voorhis, W. C., 2000, Drugs against parasitic diseases. France, 2000

Research output: Chapter in Book/Report/Conference proceedingChapter (peer-reviewed)

Protein prenylation in trypanosomatids: A new piggy-back medicinal chemistry target for the development of agents against tropical diseases

Gelb, M. J., Buckner, F. S., Yokoyama, K., Ohkanda, J., Hamilton, A., Nguyen, L., Rossi-Bergmann, B., Stuart, K. D., Sebti, S. M. & Van Voorhis, W. C., 2000, Farnesyltransferase as a target in anti-cancer drug design. Sebti, S. M. & Hamilton, A. D. (eds.). Humana Press, p. 221

Research output: Chapter in Book/Report/Conference proceedingChapter (peer-reviewed)

Principles and applications of the electrochemical quartz crystal microbalance

Ward, M., 1995, Monographs in electroanalytical chemistry and electrochemistry: Physical electrochemistry, principles, methods, and applications. Rubinstein, I. (ed.). New York: Marcel Dekker

Research output: Chapter in Book/Report/Conference proceedingChapter (peer-reviewed)

Prenyltransferase inhibitors as radiosensitizers

Bernhard, E. J., Muschel, R. J., Cohen-Jonathan, E., Favre, G., Hamilton, A. & Sebti, S. M., 2000, Farnesyltransferase as a target in anti-cancer drug design. Hamilton, A. D. & Sebti, S. M. (eds.). Humana Press, p. 171

Research output: Chapter in Book/Report/Conference proceedingChapter (peer-reviewed)

Photodissociation of HF in ArnHF (n=1-14,54)

Schroder, T., Schinke, R., Liu, S., Bacic, Z. & Moskowitz, W., 1996, Femtochemistry . Chergui, M. (ed.). Singapore: World Scientific, p. 277-280

Research output: Chapter in Book/Report/Conference proceedingChapter (peer-reviewed)

Peptidomimetic inhibitors of farnesyltransferase: An approach to new antitumor agents

Qian, Y., Sebti, S. M. & Hamilton, A., 1997, Advances in peptidomimetic chemistry. Abell, A. (ed.). JAI Press, Vol. 1. p. 165-192

Research output: Chapter in Book/Report/Conference proceedingChapter (peer-reviewed)

Peptidomimetic-based inhibitors of farnesyltransferase

Knowles, D. B., Rosenberg, S., Sebti, S. M. & Hamilton, A., 2000, Farnesyltransferase as a target in anti-cancer drug design. Sebti, S. M. & Hamilton, A. D. (eds.). Humana Press, p. 49

Research output: Chapter in Book/Report/Conference proceedingChapter (peer-reviewed)

Oxidation adjacent to C=X bonds by dehydration

Shannon, S. & Diao, T., 2014, Comprehensive organic synthesis II. Knochel, P. & Molander, G. A. (eds.). Elsevier Comp. Org. Synth., Vol. 7. p. 178-212

Research output: Chapter in Book/Report/Conference proceedingChapter (peer-reviewed)