Publication List


German Leonov, Peter G Stockley and Reidun Twarock
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Genetically embedded robustness of an RNA virus assembly mechanism reveals a broad-range anti-viral target ",
manuscript to be submitted to Science shortly.

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N. Patel, E. Wroblewski, S.E.V. Phillips, R. Tuma, R. Twarock, P.G. Stockley
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Rewriting Nature’s ssRNA Viral Assembly Manual ",
manuscript to be submitted to PNAS shortly.

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R. Bingham, E.C. Dykeman, P.G. Stockley, R. Twarock
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RNA virus evolution via a quasispecies theory-based model reveals a drug target with a high barrier to resistance ",
under review at PNAS , 2017.

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S.J. White, N. Patel, R.F. Thompson, R. Bingham, E.U. Weiss, A. Zlotnick, E.C. Dykeman, R. Tuma, R. Twarock, N.A. Ranson, P.G. Stockley
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The HBV RNA pregenome encodes specific interactions with the viral core protein promoting nucleocapsid assembly ",
under review at Nature Microbiology , 2017.

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G. Indelicato, R. Twarock
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Classification of self-assembling protein nanoparticle architectures for applications in vaccine design ",
under review at Royal Society Open Science , 2017.

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S. Shakeel, E.C. Dykeman, S.J. White, A. Ora, J.J.B. Cockburn, S.J. Butcher, P.G. Stockley, R. Twarock
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Genomic RNA folding mediates assembly of human parechovirus ",
Nature Communications 8, Article number: 5, 2017.

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H. Stewart, R.J. Bingham, S. J. White, E. C. Dykeman, k, C. Zothner, A. K. Tuplin, P. G. Stockley, R. Twarock, M. Harris
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Identification of novel RNA secondary structures within the hepatitis C virus genome reveals a cooperative involvement in genome packaging ",
Scientific Reports 6, 22952, 2016.

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Giuliana Indelicato, Newton Wahome, Philippe Ringler, Shirley A. Müller, Mu-Ping Nieh, Peter Burkhard, Reidun Twarock
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Principles Governing the Self-Assembly of Coiled-Coil Protein Nanoparticles ",
Biophys. J. 110, 646-60, 2016.

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P.G. Stockley, S. White, E.C. Dykeman, I. Manfield, O. Rolfsson, N. Patel, R. Bingham, A. Barker, E. Wroblewski, R. Chandler-Bostock, E. Weiß, N. Ranson, R. Tuma, R. Twarock
"
MS2 Genomic RNA Encodes an Assembly Instruction Manual for Its Capsid ",
Bacteriophage 6, e115766, 2016.

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O. Rolfsson, S. Middleton, I.W. Mansfield, S.J. White, B. Fan, R. Vaughan, N.A. Ranson, E.C. Dykeman, R. Twarock, J. Ford, C. Kao, P.G. Stockley
"
Direct Evidence for Packaging Signal-Mediated Assembly of Bacteriophage MS2 ",
J. Mol. Biol. 428,431-48, 2016.

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David G. Salthouse, Giuliana Indelicato, Paolo Cermelli, Tom Keef, Reidun Twarock
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Approximation of virus structure by icosahedral tilings ",
Acta Cryst. A 71, 410-422, 2015.

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Nikesh Patel, Eric Dykeman, Robert H.A. Coutts, George Lomonossoff, David J. Rowlands, Simon E.V. Phillips, Neil A. Ranson, Reidun Twarock, Roman Tuma, Peter G. Stockley
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Revealing the density of encoded functions in a viral RNA ",
PNAS 112, 2227-2232, 2015.

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JA Geraets, EC Dykeman, PG Stockley, NA Ranson, R Twarock
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Asymmetric genome organization in an RNA virus revealed via graph-theoretical analysis of tomographic data ",
PLoS Computational Biology 11(3):e1004146, 2015.

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Motiejus Valiunas, Emilio Zappa, Briony Thomas, Reidun Twarock
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Orbits of crystallographic embedding of non-crystallographic groups and applications to virology ",
Acta Cryst. A 71, 569-82, 2015. (Download a copy here.)

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Emilio Zappa, Eric C. Dykeman and Reidun Twarock
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On the subgroup structure of the hyperoctahedral group in six dimensions ",
Acta Cryst A 70, 417-428, 2014.

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  E.C. Dykeman, P.G. Stockley and R. Twarock
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Solving a Levinthal's Paradox for Virus Assembly suggests a novel anti-viral therapy ",
PNAS 111, 5361-5366, 2014
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  P. Cermelli, G. Indelicato and R. Twarock
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The role of symmetry in conformational changes of viral capsids: a mathematical approach ",
in: Discrete and Topological Models in Molecular Biology (Eds. Jonoska, Saito), Natural Computing book series, Springer, 217-240, 2014
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Emilio Zappa, Eric C. Dykeman and Reidun Twarock
"
On the subgroup structure of the hyperoctahedral group in six dimensions ",
Acta Cryst A 70, 417-428, 2014.

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  P.-P. Dechant, C. Böhm and R. Twarock
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Affine extensions of non-crystallographic Coxeter groups induced by projection ",
J. Math. Phys. 54, 093508, 2013 - cover article.
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  G. Polles, G. Indelicato, R. Potestio, P. Cermelli, R. Twarock and C. Micheletti
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Mechanical and assembly units of viral capsids identified via quasi-rigid domain decomposition ",
PLOS Computational Biology 9, e1003331, 2013 - cover article; special recommendation by the Faculty of 1000 (F1000Prime).
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  P.G. Stockley, R. Twarock, S.E. Bakker, A.M. Barker, A. Borodavka, E.C. Dykeman, R.J. Ford, A.R. Pearson, S.E. Phillips, N.A. Ranson and R. Tuma
"
Packaging signals in single-stranded RNA viruses: nature's alternative to a purely electrostatic assembly mechanism ",
J. Biol. Phys 39, 277-87, 2013
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  E.C. Dykeman, P.G. Stockley and R. Twarock
"
Building a viral capsid in the presence of genomic RNA ",
Phys. Rev. E 87, 022717, 2013
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  E.C. Dykeman, P.G. Stockley and R. Twarock
"
Packaging signals in two single-stranded RNA viruses imply a conserved assembly mechanism and geometry of the packaged genome ",
J. Mol. Biol. 425, 3235-49, 2013
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  P.G. Stockley, N.A. Ranson and R. Twarock
"
A new paradigm for the roles of the genome in ssRNA viruses ",
Future Virology 8, 531-54, 2013
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  T. Keef, J.P. Wardman, N.A. Ranson, P.G. Stockley and R. Twarock
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Structural constraints on the three-dimensional geometry of simple viruses: case studies of a new predictive tool ",
Acta Crystallogr A 69, 140-50, 2013 - also received special mention in the newsletter of the International Union of Crystallography.
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  P. Cermelli, G. Indelicato and R. Twarock
"
Nonicosahedral pathways for capsid expansion ",
Phys. Rev. E 88, 032710, 2013
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  P.-P. Dechant, C. Böhm and R. Twarock
"
Novel Kac-Moody-type affine extensions of non-crystallographic Coxeter groups ",
J. Phys. A, 45, 285202, 2012
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  G. Indelicato, P. Cermelli, D.G. Salthouse, S. Racca, G. Zanzotto and R. Twarock
"
A crystallographic approach to structural transitions in icosahedral viruses ",
J. Math. Biol., 64, 745-73, 2012
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  G. Indelicato, T. Keef, P. Cermelli, D.G. Salthouse, R. Twarock and G. Zanzotto
"
Structural transitions in quasicrystals induced by higher dimensional lattice transitions ",
Proc R Soc A, 468, 1452-1471, 2012
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  K.M. Elsawy, R. Twarock, C.S. Verma and L.S. Caves
"
Peptide inhibitors of viral assembly: a novel route to broad-spectrum antivirals ",
J Chem Inf Model, 52, 770-6, 2012
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  E.C. Dykeman, N.E. Grayson, K. Toropova, N.A. Ranson, P.G. Stockley and R. Twarock
"
Simple rules for efficient assembly predict the layout of a packaged viral RNA ",
J. Mol. Biol., 408, 399-407, 2011 - also received special mention by Global Medical Discovery.
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  K.M. ElSawy, L.S. Caves and R. Twarock
"
On the origin of order in the genome organization of ssRNA viruses ",
Biophys. J., 101, 774-80, 2011.
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  D.H. Bunka, S.W. Lane, C.L. Lane, E.C. Dykeman, R.J. Ford, A.M. Barker, R. Twarock, S.E. Phillips & P.G. Stockley
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Degenerate RNA packaging signals in the genome of Satellite Tobacco Necrosis Virus: implications for the assembly of a T=1 capsid ",
J. Mol. Biol., 413, 51-65, 2011.
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  V.L. Morton, E.C. Dykeman, N.J. Stonehouse, A.E. Ashcroft, R. Twarock and P.G. Stockley
"
The impact of viral RNA on assembly pathway selection ",
J. Mol. Biol., 401, 298-308, 2010.
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  K.M. Elsawy, L.S. Caves and R. Twarock
"
The impact of viral RNA on the association rates of capsid protein assembly: bacteriophage MS2 as a case study ",
J. Mol. Biol., 400, 935-47, 2010.
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  E.C. Dykeman, R. Twarock
"
All-atom normal-mode analysis reveals an RNA-induced allostery in a bacteriophage coat protein ",
Phys. Rev. E, 81, 031908, 2010.
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  E.C. Dykeman, P.G. Stockley and R. Twarock
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Dynamic allostery controls coat protein conformer switching during MS2 phage assembly ",
J Mol. Biol., 395, 916-23, 2010.
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  T. Keef and R. Twarock
"
Viruses and geometry - where symmetry meets function ",
Microbiology Today 37, 24-27, 2010.
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  N. Jonoska, A. Taormina, R. Twarock
"
DNA cages with icosahedral symmetry in bionanotechnology ",
in: Algorithmic Bioprocesses, Natural Computing Series, Springer Verlag, , 141-158, 2009.
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  T. Keef and R. Twarock
"
Affine extensions of the icosahedral group with applications to the three-dimensional organisation of simple viruses ",
J. Math. Biol. 59, 287-313, 2009.
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  N.E. Grayson, A. Taormina and R. Twarock
"
RNA and DNA Cages with Icosi- dodecahedral Symmetry ",
J. Theor. Comp. Sci. 410, 1440, 2009.
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  T. Keef, R. Twarock and K.M. Elsawy
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Blueprints for viral capsids in the family of Papovaviridae ",
J. Theor. Biol. 253, 808-816, 2008.
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  K.M. ElSawy, A. Taormina, R. Twarock and L. Vaughan
"
Dynamical Implications of Viral Tiling Theory ",
J. Theor. Biol. 252, 357-369, 2008.
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  T. Keef and R. Twarock
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New insights into viral architecture via affine extended symmetry groups ",
Computational and Mathematical Methods in Medicine 9, 221-229, 2008.
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  K.M. ElSawy, L.S.D. Caves and R. Twarock
"
Polyomaviridae assembly polymorphism from an energy landscape perspective ",
Computational and Mathematical Methods in Medicine 9, 245-256, 2008.
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  N. Jonoska and R. Twarock
"
Blueprints for Dodecahedral DNA Cages ",
J. Phys. A 41, 304043-304057, 2008.
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  K. Toropova, G. Basnak, R. Twarock, P.G. Stockley, and N.A. Ranson
"
The three-dimensional structure of genomic RNA in bacteriophage MS2: Implications for assembly ",
J. Mol. Biol. 375, 824-836, 2008 - cover article.
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  R. Twarock
"
A Mathematical Physicist's Approach to the Structure and Assembly of Viruses ",
Phil. Trans. Royal Soc. A 365, 3357-3374, 2006.
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  T. Keef, C. Micheletti, R. Twarock
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Master equation approach to the assembly of viral capsids ",
J. Theor. Biol. 242, 713-21, 2006.
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  R. Twarock and R. Hendrix
"
Crosslinking in Viral Capsids via Tiling Theory ",
J. Theor. Biol. 240, 419-424, 2006.
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  T. Keef, A. Taormina and R. Twarock
"
Classification of capped tubular viral particles in the family of Papovaviridae ",
J. Phys.: Condens. Matter 18, S375-S387, 2006.
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  D. Fairlie, R. Twarock and C. Zachos
"
Lie algebras associated with one-dimensional aperiodic point sets ",
J. Phys. A 39, 1367-1374, 2006 - paper has been selected for inclusion in IOP Select.
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  R. Twarock
"
The architecture of viral capsids based on tiling theory",
J. Theor. Medicine 6, 87-90, 2005.
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  R. Twarock
"
Mathematical models for tubular structures in the family of Papovaviridae",
Bull. Math. Biol. 67, 973-987, 2005.
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  T. Keef, A. Taormina and R. Twarock
"
Assembly Models for Papovaviridae based on Tiling Theory",
Phys. Biol. 2, 175-188, 2005.
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  R. Twarock
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Mathematical Models for Tubular Malformations during Virus Assembly of Papovaviridae",
WSEAS Transactions on Biology and Biomedicine 1, 243-248, 2004
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  R. Twarock
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A tiling approach to virus capsid assembly explaining a structural puzzle in virology",
J. Theor. Biol. 226, 477 - 482, 2004
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  R. Twarock
"
The Protein Stoichiometry of Viral Capsids via Tiling Theory",
WSEAS Transactions on Biology and Biomedicine 1, 68-72, 2004.
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  V. Mazorchuk and R. Twarock
"
Virasoro-type algebras associated with a Penrose tiling",
J. Phys. A 36,
4091-4111, 2003.
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  R. Twarock
"
Quadratic algebras in traffic flow models",
Rep. Math. Phys.51, 381-389, 2003.
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  E. Pelantova and R. Twarock
"Tiles in Quasicrystals with Cubic Irrationality",
J. Phys. A 36, 4363 - 4373, 2003.
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  J. Patera and R. Twarock
"Affine extensions of noncrystallographic Coxeter groups and quasicrystals",
J. Phys. A 35, 1551-1574, 2002.
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  R. Twarock
"New group structures for Carbon onions and Carbon nanotubes via affine extensions of 
non-crystallographic Coxeter groups",
Phys. Lett. A 300, 437-444, 2002, math.qa/0202068
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  P. Pyatov and R. Twarock
"Construction of Diffusion Algebras",
J. Math. Phys. 43, 3268-3279, 2002, math.qa/0202068
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  V. Dobrev, H.-D. Doebner, and R. Twarock
"Quantum Mechanics with Difference Operators",
Rep. Math. Phys. 50, 409, 2002
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  R. Twarock
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Recurrence times in dynamical systems via a quasicrystal approach",
Physics of Particles and Nuclei 33, 114-117, 2002
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  R. Twarock
"An affine extension of non-crystallographic Coxeter groups with applications in 
the theory of quasicrystals and integrable systems",
Czechoslovak Journal of Physics 51, 400-408, 2001, No.4
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  R. Twarock
"Aperiodic Virasoro Algebra",
J. Math. Phys. 41, 5088-5106, 2000
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  R. Twarock
"Special Lie algebras for quasicrystals",
J. of Material Science and Engineering A 294-296, 434-437, 2000
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  R. Twarock
"A Calogero-Sutherland Model Based on the Aperiodic Virasoro Algebra",
Int. J. Mod. Phys. A 15, 4179-4189, 2000
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  R. Twarock
"An Exactly Solvable Calogero Model for a Non-Integral Laced Group",
Phys. Lett. A 275, 169-172, 2000
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  J.-P. Antoine, L. Jacques, and R. Twarock
"Investigation of a Quasiperiodic Tiling with Fivefold Symmetry Via Wavelet Analysis",
Phys. Lett. A 261, 265-274, 1999
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  R. Twarock
"A q-Schrödinger Equation Based on a Hopf q-Deformation of the Witt Algebra",
J. Phys. A: Math. Gen. 32, 4971-4981, 1999
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  J. Patera and R. Twarock
"Quasicrystal Lie algebras and their generalizations",
Physics Reports 315, 241-256, 1999
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  R. Twarock
"q-Borel quantization on S1 and Tn",
Phys. Atomic Nucl. 61(11), 1842-1846, 1998.
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  J. Patera, E. Pelantova, and R. Twarock
"Quasicrystal Lie algebras",
Phys. Lett. A 246, 209-213, 1998
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  V. Dobrev, H.-D. Doebner, and R. Twarock
"A Discrete, Nonlinear q-Schrödinger Equation Via Borel Quantization and q-Deformation of the Witt Algebra",
J. Phys. A: Math. Gen. 30, 6841-6859, 1997
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  P. Stovicek and R. Twarock
"Representations of Uh (su(N)) derived from Quantum Flag Manifolds",
J. Math. Phys. 38, 1161-1182, 1997
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© Reidun Twarock