Research Profile

Damien Thompson

Biography

Damien Thompson is currently a lecturer in the Department of Physics at University of Limerick.

His research interests are;

Rational design of materials for energy-efficient electronics, medical devices and clean energy
High-performance computing
Molecular dynamics simulations
Electronic structure calculations


Phone:                        +353-61-234705
Email:                         damien.thompson@ul.ie

Research Grants

 ProjectFunding
Body
Start DateEnd DateAward
EI - Travel Support Damien ThompsonEnterprise Irl01-JUN-0901-SEP-09€550.00
Engineering Multivalent Proteins for Regeneratie Medicine (EMPoRiuM)Science Foundation of Ireland01-JUN-1206-NOV-13€511,724.00
Co-ordination SupportEnterprise Irl01-SEP-1130-NOV-11€4,200.00
EI FP/2010/644 Travel SupportEnterprise Irl29-MAR-1029-SEP-10€596.00

Publications

Book Chapters

 YearPublication
(2014)'Frontiers of Cu Electrodeposition and Electroless Plating for On-chip Interconnects'
Rohan, James F and Thompson, Damien (2014) 'Frontiers of Cu Electrodeposition and Electroless Plating for On-chip Interconnects' In: Springer. [Details]

Peer Reviewed Journals

 YearPublication
(2012)'Dax, Marc 139 Drieghe, D. 211,221 Dufau, S. 102 Eastmond, JFG 10'
Ellis, AW and Baron, J and Beale, IL and Bell, L and Brahe, Tycho and Broca, Paul and Bruner, JS and Bryden, MP and Carreiras, M and Cattell, J and others (2012) 'Dax, Marc 139 Drieghe, D. 211,221 Dufau, S. 102 Eastmond, JFG 10'. Visual Word Recognition: Models and Methods, Orthography and Phonology, 1 [Details]
(1990)'Children's Difficulties in Reading, Spelling and Writing'
Ellis, A and Farr, R and Flavcll, JH and Forresr-Pressley, DL and France, N and Francis, H and Fredman, G and Freebody, P and Gaskins, IW and Gelzheiser, LM and others (1990) 'Children's Difficulties in Reading, Spelling and Writing'. Children's Difficulties in Reading, Spelling, and Writing: Challenges and Responses, [Details]
(1993)'Catalan, J. 16,112'
Cautela, J and Chandani, AT and Channon, LD and Channon, S and Charmoli, MC and Chester, R and Cixous, H and Cohen, ML and Coles, L and Collins, M and others (1993) 'Catalan, J. 16,112'. Psychological Perspectives on Sexual Problems: New Directions in Theory and Practice, [Details]
(2012)'Nanoparticle-based drug delivery: Case studies for cancer and cardiovascular applications'
Galvin, Paul and Thompson, Damien and Ryan, Katie B and McCarthy, Anna and Moore, Anne C and Burke, Conor S and Dyson, Maya and MacCraith, Brian D and Gun’ko, Yurii K and Byrne, Michelle T and others (2012) 'Nanoparticle-based drug delivery: Case studies for cancer and cardiovascular applications'. Cellular and Molecular Life Sciences, 69 (3):389-404 [Details]
(2012)'Non-Covalent Functionalization of Graphene Using Self-Assembly of Alkane-Amines'
Long, Brenda and Manning, Mary and Burke, Micheal and Szafranek, Bartholomaeus N and Visimberga, Giuseppe and Thompson, Damien and Greer, James C and Povey, Ian M and MacHale, John and Lejosne, Guaylord and others (2012) 'Non-Covalent Functionalization of Graphene Using Self-Assembly of Alkane-Amines'. Advanced Functional Materials, 22 (4):717-725 [Details]
(2012)'Scanning the potential energy surface for synthesis of dendrimer-wrapped gold clusters: design rules for true single-molecule nanostructures'
Thompson, Damien and Hermes, Jens P and Quinn, Aidan J and Mayor, Marcel (2012) 'Scanning the potential energy surface for synthesis of dendrimer-wrapped gold clusters: design rules for true single-molecule nanostructures'. ACS nano, 6 (4):3007-3017 [Details]
(2007)'Free energy balance predicates dendrimer binding multivalency at molecular printboards'
Thompson, D; (2007) 'Free energy balance predicates dendrimer binding multivalency at molecular printboards'. Langmuir, 23 :8441-8451 [DOI] [Details]
(2008)'The effective concentration of unbound ink anchors at the molecular printboard'
Thompson, D; (2008) 'The effective concentration of unbound ink anchors at the molecular printboard'. Journal of Physical Chemistry B, 112 :4994-4999 [DOI] [Details]
(2013)'Nanoscale Dynamics and Protein Adhesivity of Alkylamine Self-Assembled Monolayers on Graphene'
O’Mahony, S and O’Dwyer, C and Nijhuis, CA and Greer, JC and Quinn, AJ and Thompson, D (2013) 'Nanoscale Dynamics and Protein Adhesivity of Alkylamine Self-Assembled Monolayers on Graphene'. Langmuir, 29 (24):7271-7282 [Details]
(2011)'Linker-mediated assembly of gold nanoparticles into multimeric motifs'
Sikora, Mateusz and Szymczak, Piotr and Thompson, Damien and Cieplak, Marek (2011) 'Linker-mediated assembly of gold nanoparticles into multimeric motifs'. Nanotechnology, 22 (44) [Details]
(2009)'Monolayer packing, dehydration, and ink-binding dynamics at the molecular printboard'
Gannon, Greg and Larsson, J Andreas and Thompson, Damien (2009) 'Monolayer packing, dehydration, and ink-binding dynamics at the molecular printboard'. The Journal of Physical Chemistry C, 113 (17):7298-7304 [Details]
(2013)'Large directional conductivity change in chemically stable layered thin films of vanadium oxide and a 1D metal complex'
Glynn, C and Thompson, D and Paez, J and Collins, G and Benavente, E and Lavayen, V and Yutronic, N and Holmes, JD and Gonz\'alez, G and O'Dwyer, C (2013) 'Large directional conductivity change in chemically stable layered thin films of vanadium oxide and a 1D metal complex'. J. Mater. Chem. C, 1 (36):5675-5684 [Details]
(2014)'On the Remarkable Role of Surface Topography of the Bottom-Electrodes in Blocking Leakage Currents in Molecular Diodes'
Yuan, Li and Jiang, Li and Thompson, Damien and Nijhuis, Christian A (2014) 'On the Remarkable Role of Surface Topography of the Bottom-Electrodes in Blocking Leakage Currents in Molecular Diodes'. Journal of the American Chemical Society, [Details]
(2003)'The interplay of electrostatic and covalent effects in 1-butene oxidation over vanadyl pyrophosphate'
Thompson, DJ and Fanning, MO and Hodnett, BK (2003) 'The interplay of electrostatic and covalent effects in 1-butene oxidation over vanadyl pyrophosphate'. Journal of Molecular Catalysis A: Chemical, 206 (1):435-439 [Details]
(2004)'Electronic structure of the extended vanadyl pyrophosphate (100) surface'
Thompson, DJ and Ciob\i^ca, IM and Hodnett, BK and Van Santen, RA and Fanning, MO (2004) 'Electronic structure of the extended vanadyl pyrophosphate (100) surface'. Catalysis today, 91 :177-180 [Details]
(2008)'Hydrocarbon Selective Oxidation on Vanadium Phosphorus Oxide Catalysts: Insights from Electronic Structure Calculations'
Thompson, Damien and Hodnett, BK (2008) 'Hydrocarbon Selective Oxidation on Vanadium Phosphorus Oxide Catalysts: Insights from Electronic Structure Calculations'. Topics in Catalysis, 50 (1-4):116-123 [Details]
(2013)'A multi-scale molecular dynamics study of the assembly of micron-size supraparticles from 30 nm alkyl-coated nanoparticles'
Thompson, Damien and Sikora, Mateusz and Szymczak, Piotr and Cieplak, Marek (2013) 'A multi-scale molecular dynamics study of the assembly of micron-size supraparticles from 30 nm alkyl-coated nanoparticles'. Physical Chemistry Chemical Physics, 15 (21):8132-8143 [Details]
(2003)'Erratum to “Modelling the active sites in vanadyl pyrophosphate”'
Thompson, DJ and Fanning, MO and Hodnett, BK (2003) 'Erratum to “Modelling the active sites in vanadyl pyrophosphate”'. Journal of Molecular Catalysis A: Chemical, 198 (1) [Details]
(2015)'On the hydration of subnanometric antifouling organosilane adlayers: A molecular dynamics simulation'
Sheikh, Sonia and Blaszykowski, Christophe and Nolan, Robert and Thompson, Damien and Thompson, Michael (2015) 'On the hydration of subnanometric antifouling organosilane adlayers: A molecular dynamics simulation'. Journal of colloid and interface science, 437 :197-204 [Details]
(2014)'Nanoelectrical analysis of single molecules and atomic-scale materials at the solid/liquid interface'
Nirmalraj, Peter and Thompson, Damien and Molina-Ontoria, Agust\'\in and Sousa, Marilyne and Mart\'\in, Nazario and Gotsmann, Bernd and Riel, Heike (2014) 'Nanoelectrical analysis of single molecules and atomic-scale materials at the solid/liquid interface'. Nature materials, [Details]
(2014)'Mechanostability of cohesin-dockerin complexes in a structure-based model: Anisotropy and lack of universality in the force profiles'
Wojciechowski, Micha\l and Thompson, Damien and Cieplak, Marek (2014) 'Mechanostability of cohesin-dockerin complexes in a structure-based model: Anisotropy and lack of universality in the force profiles'. The Journal of chemical physics, 141 (24) [Details]
(1993)'The importance of bleomycin in combination chemotherapy for good-prognosis germ cell carcinoma. Australasian Germ Cell Trial Group'
Levi, John A and Raghavan, Derek and Harvey, Vernon and Thompson, Damien and Sandeman, Tom and Gill, Grantley and Stuart-Harris, Robin and Snyder, Raymond and Byrne, Michael and Kerestes, Zoltan (1993) 'The importance of bleomycin in combination chemotherapy for good-prognosis germ cell carcinoma. Australasian Germ Cell Trial Group'. Journal of clinical oncology, 11 (7):1300-1305 [Details]
(2013)'The role of van der Waals forces in the performance of molecular diodes'
Nerngchamnong, Nisachol and Yuan, Li and Qi, Dong-Chen and Li, Jiang and Thompson, Damien and Nijhuis, Christian A (2013) 'The role of van der Waals forces in the performance of molecular diodes'. Nature nanotechnology, 8 (2):113-118 [Details]
(2011)'Gradient-driven motion of multivalent ligand molecules along a surface functionalized with multiple receptors'
Perl, Andr\'as and Gomez-Casado, Alberto and Thompson, Damien and Dam, Henk H and Jonkheijm, Pascal and Reinhoudt, David N and Huskens, Jurriaan (2011) 'Gradient-driven motion of multivalent ligand molecules along a surface functionalized with multiple receptors'. Nature chemistry, 3 (4):317-322 [Details]
(2006)'Molecular dynamics simulations show that bound Mg2+ contributes to amino acid and aminoacyl adenylate binding specificity in aspartyl-tRNA synthetase through long range electrostatic interactions'
Thompson, Damien and Simonson, Thomas (2006) 'Molecular dynamics simulations show that bound Mg2+ contributes to amino acid and aminoacyl adenylate binding specificity in aspartyl-tRNA synthetase through long range electrostatic interactions'. Journal of Biological Chemistry, 281 (33):23792-23803 [Details]
(2006)'Free-Energy Simulations and Experiments Reveal Long-Range Electrostatic Interactions and Substrate-Assisted Specificity in an Aminoacyl-tRNA Synthetase'
Thompson, Damien and Plateau, Pierre and Simonson, Thomas (2006) 'Free-Energy Simulations and Experiments Reveal Long-Range Electrostatic Interactions and Substrate-Assisted Specificity in an Aminoacyl-tRNA Synthetase'. ChemBioChem, 7 (2):337-344 [Details]
(2010)'Alchemical free energy simulations for biological complexes: powerful but temperamental…'
Aleksandrov, Alexey and Thompson, Damien and Simonson, Thomas (2010) 'Alchemical free energy simulations for biological complexes: powerful but temperamental…'. Journal of Molecular Recognition, 23 (2):117-127 [Details]
(2006)'Modeling competitive guest binding to $\beta$-cyclodextrin molecular printboards'
Thompson, D and Larsson, JA (2006) 'Modeling competitive guest binding to $\beta$-cyclodextrin molecular printboards'. The Journal of Physical Chemistry B, 110 (33):16640-16645 [Details]
(2010)'Molecular dynamics study of naturally occurring defects in self-assembled monolayer formation'
Gannon, G and Greer, JC and Larsson, JA and Thompson, D (2010) 'Molecular dynamics study of naturally occurring defects in self-assembled monolayer formation'. ACS nano, 4 (2):921-932 [Details]
(2008)'Quantification of ink diffusion in microcontact printing with self-assembled monolayers'
Gannon, G and Larsson, JA and Greer, JC and Thompson, D (2008) 'Quantification of ink diffusion in microcontact printing with self-assembled monolayers'. Langmuir, 25 (1):242-247 [Details]
(2010)'Interaction of acridine-calix [4] arene with DNA at the electrified liquid| liquid interface'
Kivlehan, Francine and Lefoix, Myriam and Moynihan, Humphrey A and Thompson, Damien and Ogurtsov, Vladimir I and Herzog, Gr\'egoire and Arrigan, Damien WM (2010) 'Interaction of acridine-calix [4] arene with DNA at the electrified liquid| liquid interface'. Electrochimica Acta, 55 (9):3348-3354 [Details]
(2003)'Modelling the active sites in vanadyl pyrophosphate'
Thompson, Damien Joseph and Fanning, MO and Hodnett, BK (2003) 'Modelling the active sites in vanadyl pyrophosphate'. Journal of Molecular Catalysis A: Chemical, 198 (1):125-137 [Details]
(2007)'Ammonium scanning in an enzyme active site the chiral specificity of aspartyl-tRNA synthetase'
Thompson, Damien and Lazennec, Christine and Plateau, Pierre and Simonson, Thomas (2007) 'Ammonium scanning in an enzyme active site the chiral specificity of aspartyl-tRNA synthetase'. Journal of Biological Chemistry, 282 (42):30856-30868 [Details]
(2008)'Coarse-grained molecular dynamics simulations of nanopatterning with multivalent inks'
Cieplak, Marek and Thompson, Damien (2008) 'Coarse-grained molecular dynamics simulations of nanopatterning with multivalent inks'. The Journal of chemical physics, 128 (23) [Details]
(2012)'Monofunctionalized Gold Nanoparticles Stabilized by a Single Dendrimer Form Dumbbell Structures upon Homocoupling'
Hermes, Jens Peter and Sander, Fabian and Fluch, Ulrike and Peterle, Torsten and Thompson, Damien and Urbani, Raphael and Pfohl, Thomas and Mayor, Marcel (2012) 'Monofunctionalized Gold Nanoparticles Stabilized by a Single Dendrimer Form Dumbbell Structures upon Homocoupling'. Journal of the American Chemical Society, 134 (36):14674-14677 [Details]
(2008)'Computer Simulations Reveal a Novel Nucleotide-Type Binding Orientation for Ellipticine-Based Anticancer c-kit Kinase Inhibitors†'
Thompson, Damien and Miller, Charlotte and McCarthy, Florence O (2008) 'Computer Simulations Reveal a Novel Nucleotide-Type Binding Orientation for Ellipticine-Based Anticancer c-kit Kinase Inhibitors†'. Biochemistry, 47 (39):10333-10344 [Details]
(2011)'Interdigitating Organic Bilayers Direct the Short Interlayer Spacing in Hybrid Organic--Inorganic Layered Vanadium Oxide Nanostructures'
Gannon, G and O’Dwyer, C and Larsson, JA and Thompson, D (2011) 'Interdigitating Organic Bilayers Direct the Short Interlayer Spacing in Hybrid Organic--Inorganic Layered Vanadium Oxide Nanostructures'. The Journal of Physical Chemistry B, 115 (49):14518-14525 [Details]
(2011)'Gold Nanoparticles Stabilized by Thioether Dendrimers'
Hermes, Jens Peter and Sander, Fabian and Peterle, Torsten and Urbani, Raphael and Pfohl, Thomas and Thompson, Damien and Mayor, Marcel (2011) 'Gold Nanoparticles Stabilized by Thioether Dendrimers'. Chemistry-A European Journal, 17 (48):13473-13481 [Details]
(2008)'Probing electrostatic interactions and ligand binding in aspartyl-tRNA synthetase through site-directed mutagenesis and computer simulations'
Thompson, Damien and Lazennec, Christine and Plateau, Pierre and Simonson, Thomas (2008) 'Probing electrostatic interactions and ligand binding in aspartyl-tRNA synthetase through site-directed mutagenesis and computer simulations'. Proteins: Structure, Function, and Bioinformatics, 71 (3):1450-1460 [Details]
(2011)'Molecular dynamics of the “hydrophobic patch” that immobilizes hydrophobin protein HFBII on silicon'
Moldovan, Clara and Thompson, Damien (2011) 'Molecular dynamics of the “hydrophobic patch” that immobilizes hydrophobin protein HFBII on silicon'. Journal of molecular modeling, 17 (9):2227-2235 [Details]
(2012)'Accommodating Curvature in a Highly Ordered Functionalized Metal Oxide Nanofiber: Synthesis, Characterization, and Multiscale Modeling of Layered Nanosheets'
O’Dwyer, Colm and Gannon, G and McNulty, D and Buckley, D Noel and Thompson, Damien (2012) 'Accommodating Curvature in a Highly Ordered Functionalized Metal Oxide Nanofiber: Synthesis, Characterization, and Multiscale Modeling of Layered Nanosheets'. Chemistry of Materials, 24 (20):3981-3992 [Details]
(2003)'A DFT periodic study of the vanadyl pyrophosphate (100) surface'
Thompson, DJ and Ciob\i^c\ua (2003) 'A DFT periodic study of the vanadyl pyrophosphate (100) surface'. Surface science, 547 (3):438-451 [Details]
(2011)'Electronic structure calculations and physicochemical experiments quantify the competitive liquid ion association and probe stabilisation effects for nitrobenzospiropyran in phosphonium-based ionic liquids'
Thompson, Damien and Coleman, Simon and Diamond, Dermot and Byrne, Robert (2011) 'Electronic structure calculations and physicochemical experiments quantify the competitive liquid ion association and probe stabilisation effects for nitrobenzospiropyran in phosphonium-based ionic liquids'. Physical Chemistry Chemical Physics, 13 (13):6156-6168 [Details]
(2008)'Guanidinium Chloride Molecular Diffusion in Aqueous and Mixed Water- Ethanol Solutions'
Gannon, G and Larsson, JA and Greer, JC and Thompson, D (2008) 'Guanidinium Chloride Molecular Diffusion in Aqueous and Mixed Water- Ethanol Solutions'. The Journal of Physical Chemistry B, 112 (30):8906-8911 [Details]
(2007)'In Silico Engineering of Tailored Ink-Binding Ability at Molecular Printboards'
Thompson, Damien (2007) 'In Silico Engineering of Tailored Ink-Binding Ability at Molecular Printboards'. ChemPhysChem, 8 (11):1684-1693 [Details]
(2008)'Modelling ink spreading on self-assembled monolayers for nanopatterning applications'
Gannon, Greg and Larsson, Andreas and Greer, James C and Thompson, Damien J (2008) 'Modelling ink spreading on self-assembled monolayers for nanopatterning applications'. Self-assembly and self-organisation at surfaces and interfaces, [Details]
(2014)'Reassigning the most stable surface of hydroxyapatite to the water resistant hydroxyl terminated (010) surface'
Zeglinski, Jacek and Nolan, Michael and Thompson, Damien and Tofail, Syed AM (2014) 'Reassigning the most stable surface of hydroxyapatite to the water resistant hydroxyl terminated (010) surface'. Surface Science, 623 :55-63 [Details]
(2014)'Reassigning the most stable surface of hydroxyapatite to the water resistant hydroxyl terminated (010) surface'
Zeglinski, J,Nolan, M,Thompson, D,Tofail, SAM (2014) 'Reassigning the most stable surface of hydroxyapatite to the water resistant hydroxyl terminated (010) surface'. Surface Science, 623 :55-63 [DOI] [Details]
(2008)'Hydrocarbon Selective Oxidation on Vanadium Phosphorus Oxide Catalysts: Insights from Electronic Structure Calculations'
Thompson, D,Hodnett, BK (2008) 'Hydrocarbon Selective Oxidation on Vanadium Phosphorus Oxide Catalysts: Insights from Electronic Structure Calculations'. Topics In Catalysis, 50 :116-123 [DOI] [Details]
(2008)'Hydrocarbon Selective Oxidation On Vanadium Phosphorus Oxide Catalysts: Insights From Electronic Structure Calculations'
Thompson, D, Hodnett, BK; (2008) 'Hydrocarbon Selective Oxidation On Vanadium Phosphorus Oxide Catalysts: Insights From Electronic Structure Calculations'. Topics In Catalysis, 50 (1-4):116-123 [DOI] [Details]
(2012)'Nanoparticle-based drug delivery: case studies for cancer and cardiovascular applications'
Galvin P, Thompson D, Ryan K.B., McCarthy A, Moore AC, Burke CS, Dyson M, Maccraith BD, Gun'ko YK, Byrne MT, Volkov Y, Keely C, Keehan E, Howe M, Duffy C, Macloughlin R. (2012) 'Nanoparticle-based drug delivery: case studies for cancer and cardiovascular applications'. Cellular and molecular life sciences : CMLS, 69 (3):389-404 [DOI] [Details]
(2012)'Non-Covalent Functionalization of Graphene Using Self-Assembly of Alkane-Amines'
Long, B,Manning, M,Burke, M,Szafranek, BN,Visimberga, G,Thompson, D,Greer, JC,Povey, IM,MacHale, J,Lejosne, G,Neumaier, D,Quinn, AJ (2012) 'Non-Covalent Functionalization of Graphene Using Self-Assembly of Alkane-Amines'. Advanced Functional Materials, 22 :717-725 [DOI] [Details]
(2012)'Monofunctionalized Gold Nanoparticles Stabilized by a Single Dendrimer Form Dumbbell Structures upon Homocoupling'
Hermes, JP,Sander, F,Fluch, U,Peterle, T,Thompson, D,Urbani, R,Pfohl, T,Mayor, M (2012) 'Monofunctionalized Gold Nanoparticles Stabilized by a Single Dendrimer Form Dumbbell Structures upon Homocoupling'. Journal of the American Chemical Society, 134 :14674-14677 [DOI] [Details]
(2012)'Accommodating Curvature in a Highly Ordered Functionalized Metal Oxide Nanofiber: Synthesis, Characterization, and Multiscale Modeling of Layered Nanosheets'
O'Dwyer, C,Gannon, G,McNulty, D,Buckley, DN,Thompson, D (2012) 'Accommodating Curvature in a Highly Ordered Functionalized Metal Oxide Nanofiber: Synthesis, Characterization, and Multiscale Modeling of Layered Nanosheets'. Chemistry of Materials, 24 :3981-3992 [DOI] [Details]
(2011)'Interdigitating Organic Bilayers Direct the Short Inter layer Spacing in Hybrid Organic-Inorganic Layered Vanadium Oxide Nanostructures'
Gannon, G,O'Dwyer, C,Larsson, JA,Thompson, D (2011) 'Interdigitating Organic Bilayers Direct the Short Inter layer Spacing in Hybrid Organic-Inorganic Layered Vanadium Oxide Nanostructures'. The journal of physical chemistry. B, 115 :14518-14525 [DOI] [Details]
(2010)'Alchemical free energy simulations for biological complexes: powerful but temperamental '
Aleksandrov, A,Thompson, D,Simonson, T (2010) 'Alchemical free energy simulations for biological complexes: powerful but temperamental '. Journal Of Molecular Recognition, 23 :117-127 [DOI] [Details]
(2010)'Molecular dynamics study of naturally occurring defects in self-assembled monolayer formation'
Gannon G, Greer JC, Larsson JA, Thompson D (2010) 'Molecular dynamics study of naturally occurring defects in self-assembled monolayer formation'. ACS Nano, 4 (2):921-932 [DOI] [Details]
(2009)'Quantification of ink diffusion in microcontact printing with self-assembled monolayers'
Gannon G, Larsson JA, Greer JC, Thompson D (2009) 'Quantification of ink diffusion in microcontact printing with self-assembled monolayers'. Langmuir : the ACS journal of surfaces and colloids, 25 (1):242-247 [DOI] [Details]
(2009)'Design and synthesis of novel ellipticine c-Kit Kinase inhibitors'
Miller, C; Thompson, D; McCarthy, FO; (2009) 'Design and synthesis of novel ellipticine c-Kit Kinase inhibitors'. Drugs of the Future, 34 (Suppl A):102-102 [Details]
(2009)'Monolayer Packing, Dehydration, and Ink-Binding Dynamics at the Molecular Printboard'
Gannon, G,Larsson, JA,Thompson, D (2009) 'Monolayer Packing, Dehydration, and Ink-Binding Dynamics at the Molecular Printboard'. Journal of Physical Chemistry C, 113 :7298-7304 [DOI] [Details]
(2008)'Coarse-grained molecular dynamics simulations of nanopatterning with multivalent inks'
Cieplak, M,Thompson, D (2008) 'Coarse-grained molecular dynamics simulations of nanopatterning with multivalent inks'. The Journal of chemical physics, 128 [DOI] [Details]
(2008)'Computer Simulations Reveal A Novel Nucleotide-Type Binding Orientation For Ellipticine-Based Anticancer C-Kit Kinase Inhibitors'
Thompson, D, Miller, C, McCarthy, FO; (2008) 'Computer Simulations Reveal A Novel Nucleotide-Type Binding Orientation For Ellipticine-Based Anticancer C-Kit Kinase Inhibitors'. Biochemistry, 47 (39):10333-10344 [DOI] [Details]
(2006)'Modeling competitive guest binding to beta-cyclodextrin molecular printboards'
Thompson, D,Larsson, JA (2006) 'Modeling competitive guest binding to beta-cyclodextrin molecular printboards'. The journal of physical chemistry. B, 110 :16640-16645 [DOI] [Details]
(2006)'Molecular dynamics simulations show that bound Mg2+ contributes to amino acid and aminoacyl adenylate binding specificity in aspartyl-tRNA synthetase through long range electrostatic interactions'
Thompson, D,Simonson, T; (2006) 'Molecular dynamics simulations show that bound Mg2+ contributes to amino acid and aminoacyl adenylate binding specificity in aspartyl-tRNA synthetase through long range electrostatic interactions'. The Journal of Biological Chemistry, 281 :23792-23803 [DOI] [Details]
(2006)'Free-energy simulations and experiments reveal long-range electrostatic interactions and substrate-assisted specificity in an aminoacyl-tRNA synthetase'
Thompson, D,Plateau, P,Simonson, T; (2006) 'Free-energy simulations and experiments reveal long-range electrostatic interactions and substrate-assisted specificity in an aminoacyl-tRNA synthetase'. Chembiochem, 7 :337-344 [DOI] [Details]
(1999)'Principles of applied neurogastroenterology: physiology/motility-sensation. Gut'
Kellow, J. E.,Delvaux, M.,Azpiroz, F.,Camilleri, M.,Quigley, E. M.,Thompson, D. G.; (1999) 'Principles of applied neurogastroenterology: physiology/motility-sensation. Gut'. Gut, 45 Suppl 2   [Details]
(2011)'Gold Nanoparticles Stabilized by Thioether Dendrimers'
Hermes, JP,Sander, F,Peterle, T,Urbani, R,Pfohl, T,Thompson, D,Mayor, M (2011) 'Gold Nanoparticles Stabilized by Thioether Dendrimers'. Chemistry - A European Journal, 17 :13473-13481 [DOI] [Details]
(2011)'Linker-mediated assembly of gold nanoparticles into multimeric motifs'
Sikora, M,Szymczak, P,Thompson, D,Cieplak, M (2011) 'Linker-mediated assembly of gold nanoparticles into multimeric motifs'. Log, 22 [DOI] [Details]
(2010)'Interaction of acridine-calix[4]arene with DNA at the electrified liquid liquid interface'
Kivlehan, F,Lefoix, M,Moynihan, HA,Thompson, D,Ogurtsov, VI,Herzog, G,Arrigan, DWM; (2010) 'Interaction of acridine-calix[4]arene with DNA at the electrified liquid liquid interface'. Electrochimica Acta, 55 :3348-3354 [DOI] [Details]
(2008)'Guanidinium chloride molecular diffusion in aqueous and mixed water-ethanol solutions'
Gannon, G,Larsson, JA,Greer, JC,Thompson, D (2008) 'Guanidinium chloride molecular diffusion in aqueous and mixed water-ethanol solutions'. The journal of physical chemistry. B, 112 :8906-8911 [DOI] [Details]
(2007)'In silico engineering of tailored ink-binding ability at molecular printboards'
Thompson, D; (2007) 'In silico engineering of tailored ink-binding ability at molecular printboards'. Chemphyschem, 8 :1684-1693 [DOI] [Details]
(2011)'Gradient-driven motion of multivalent ligand molecules along a surface functionalized with multiple receptors'
Perl, A,Gomez-Casado, A,Thompson, D,Dam, HH,Jonkheijm, P,Reinhoudt, DN,Huskens, J; (2011) 'Gradient-driven motion of multivalent ligand molecules along a surface functionalized with multiple receptors'. Nature, 3 :317-322 [DOI] [Details]
(2011)'Interdigitating Organic Bilayers Direct the Short Inter layer Spacing in Hybrid Organic-Inorganic Layered Vanadium Oxide Nanostructures'
Gannon, G.,O'Dwyer, C.,Larsson, J. A.,Thompson, D. (2011) 'Interdigitating Organic Bilayers Direct the Short Inter layer Spacing in Hybrid Organic-Inorganic Layered Vanadium Oxide Nanostructures'. Journal of Physical Chemistry B, 115 :14518-14525 [Details]
(2010)'Molecular Dynamics Study of Naturally Occurring Defects in Self-Assembled Monolayer Formation'
Gannon, G,Greer, JC,Larsson, JA,Thompson, D; (2010) 'Molecular Dynamics Study of Naturally Occurring Defects in Self-Assembled Monolayer Formation'. ACS Nano, 4 :921-932 [DOI] [Details]
(2009)'Quantification of Ink Diffusion in Microcontact Printing with Self-Assembled Monolayers'
Gannon, G,Larsson, JA,Greer, JC,Thompson, D (2009) 'Quantification of Ink Diffusion in Microcontact Printing with Self-Assembled Monolayers'. Langmuir : the ACS journal of surfaces and colloids, 25 :242-247 [DOI] [Details]
(2008)'Guanidinium chloride molecular diffusion in aqueous and mixed water-ethanol solutions'
Gannon G, Larsson JA, Greer JC, Thompson D (2008) 'Guanidinium chloride molecular diffusion in aqueous and mixed water-ethanol solutions'. The journal of physical chemistry. B, 112 (30):8906-8911 [DOI] [Details]
(2008)'Probing Electrostatic Interactions and Ligand Binding In Aspartyl-Trna Synthetase Through Site-Directed Mutagenesis and Computer Simulations'
Thompson, D, Lazennec, C, Plateau, P, Simonson, T; (2008) 'Probing Electrostatic Interactions and Ligand Binding In Aspartyl-Trna Synthetase Through Site-Directed Mutagenesis and Computer Simulations'. Proteins-Structure Function and Bioinformatics, 71 (3):1450-1460 [DOI] [Details]
(2008)'Computer simulations reveal a novel nucleotide-type binding orientation for ellipticine-based anticancer c-kit kinase inhibitors'
Thompson, D,Miller, C,McCarthy, FO; (2008) 'Computer simulations reveal a novel nucleotide-type binding orientation for ellipticine-based anticancer c-kit kinase inhibitors'. Biochemistry, 47 :10333-10344 [DOI] [Details]
(2007)'Ammonium Scanning In An Enzyme Active Site - The Chiral Specificity of Aspartyl-Trna Synthetase'
Thompson, D, Lazennec, C, Plateau, P, Simonson, T; (2007) 'Ammonium Scanning In An Enzyme Active Site - The Chiral Specificity of Aspartyl-Trna Synthetase'. The Journal of Biological Chemistry, 282 (42):30856-30868 [DOI] [Details]
(2012)'Nanoparticle-based drug delivery: case studies for cancer and cardiovascular applications'
Galvin, P,Thompson, D,Ryan, KB,McCarthy, A,Moore, AC,Burke, CS,Dyson, M,MacCraith, BD,Gun'ko, YK,Byrne, MT,Volkov, Y,Keely, C,Keehan, E,Howe, M,Duffy, C,MacLoughlin, R (2012) 'Nanoparticle-based drug delivery: case studies for cancer and cardiovascular applications'. :389-404 [DOI] [Details]
(2009)'Engineering enzyme:substrate specificity: From free energy simulations to computational protein design'
Simonson, T,Thompson, D,Lopes, A (2009) 'Engineering enzyme:substrate specificity: From free energy simulations to computational protein design'. Abstracts Of Papers Of The American Chemical Society, 238 [Details]
(2009)'DESIGN & SYNTHESIS OF NOVEL ELLIPTICINE C-KIT KINASE INHIBITORS'
Miller, C,Thompson, D,McCarthy, FO (2009) 'DESIGN & SYNTHESIS OF NOVEL ELLIPTICINE C-KIT KINASE INHIBITORS'. Drugs of The Future, 34 :102-102 [Details]
(2013)'Large directional conductivity change in chemically stable layered thin films of vanadium oxide and a 1D metal complex'
Glynn, C,Thompson, D,Paez, J,Collins, G,Benavente, E,Lavayen, V,Yutronic, N,Holmes, JD,Gonzalez, G,O'Dwyer, C (2013) 'Large directional conductivity change in chemically stable layered thin films of vanadium oxide and a 1D metal complex'. Journal of Materials Chemistry C, 1 :5675-5684 [DOI] [Details]
(2013)'Nanoscale Dynamics and Protein Adhesivity of Alkylamine Self-Assembled Mono layers on Graphene'
O'Mahony, S,O'Dwyer, C,Nijhuis, CA,Greer, JC,Quinn, AJ,Thompson, D (2013) 'Nanoscale Dynamics and Protein Adhesivity of Alkylamine Self-Assembled Mono layers on Graphene'. Langmuir : the ACS journal of surfaces and colloids, 29 :7271-7282 [DOI] [Details]
(2013)'Large directional conductivity change in chemically stable layered thin films of vanadium oxide and a 1D metal complex'
Glynn, C.; Thompson, D.; Paez, J.; Collins, G.; Benavente, E.; Lavayen, V.; Yutronic, N.; Holmes, J. D.; Gonzalez, G.; O’Dwyer, C. (2013) 'Large directional conductivity change in chemically stable layered thin films of vanadium oxide and a 1D metal complex'. Journal of Materials Chemistry C, 1 (36):5675-5684   [DOI] [Details]
(2013)'The role of van der Waals forces in the performance of molecular diodes'
Nerngchamnong, N,Yuan, L,Qi, DC,Li, J,Thompson, D,Nijhuis, CA (2013) 'The role of van der Waals forces in the performance of molecular diodes'. Nature Nanotechnology, 8 :113-118 [DOI] [Details]
(2013)'A multi-scale molecular dynamics study of the assembly of micron-size supraparticles from 30 nm alkyl-coated nanoparticles'
Thompson, D,Sikora, M,Szymczak, P,Cieplak, M (2013) 'A multi-scale molecular dynamics study of the assembly of micron-size supraparticles from 30 nm alkyl-coated nanoparticles'. Physical chemistry chemical physics : PCCP, 15 :8132-8143 [DOI] [Details]
(2013)'Nanoscale dynamics and protein adhesivity of alkylamine self-assembled monolayers on graphene'
O'Mahony S, O'Dwyer C, Nijhuis CA, Greer JC, Quinn AJ, Thompson D (2013) 'Nanoscale dynamics and protein adhesivity of alkylamine self-assembled monolayers on graphene'. Langmuir : the ACS journal of surfaces and colloids, 29 (24):7271-7282 [DOI] [Details]
(2012)'Scanning the Potential Energy Surface for Synthesis of Dendrimer-Wrapped Gold Clusters: Design Rules for True Single-Molecule Nanostructures'
Thompson, D,Hermes, JP,Quinn, AJ,Mayor, M (2012) 'Scanning the Potential Energy Surface for Synthesis of Dendrimer-Wrapped Gold Clusters: Design Rules for True Single-Molecule Nanostructures'. ACS Nano, 6 :3007-3017 [DOI] [Details]
(2011)'Molecular dynamics of the hydrophobic patch that immobilizes hydrophobin protein HFBII on silicon'
Moldovan, C,Thompson, D; (2011) 'Molecular dynamics of the hydrophobic patch that immobilizes hydrophobin protein HFBII on silicon'. Rna-A Publication of The Rna Society, 17 :2227-2235 [DOI] [Details]
(2011)'Nanoparticle-based drug delivery: case studies for cancer and cardiovascular applications'
Galvin P, Thompson D, Ryan KB, McCarthy A, Moore AC, Burke CS, Dyson M, Maccraith BD, Gun'ko YK, Byrne MT, Volkov Y, Keely C, Keehan E, Howe M, Duffy C, Macloughlin R (2011) 'Nanoparticle-based drug delivery: case studies for cancer and cardiovascular applications'. Cellular and molecular life sciences : CMLS, [DOI] [Details]
(2011)'Electronic structure calculations and physicochemical experiments quantify the competitive liquid ion association and probe stabilisation effects for nitrobenzospiropyran in phosphonium-based ionic liquids'
Thompson, D,Coleman, S,Diamond, D,Byrne, R; (2011) 'Electronic structure calculations and physicochemical experiments quantify the competitive liquid ion association and probe stabilisation effects for nitrobenzospiropyran in phosphonium-based ionic liquids'. Physica, 13 :6156-6168 [DOI] [Details]
(2008)'Probing electrostatic interactions and ligand binding in aspartyl-tRNA synthetase through site-directed mutagenesis and computer simulations'
Thompson, D,Lazennec, C,Plateau, P,Simonson, T; (2008) 'Probing electrostatic interactions and ligand binding in aspartyl-tRNA synthetase through site-directed mutagenesis and computer simulations'. Proteins-Structure Function and Bioinformatics, 71 :1450-1460 [DOI] [Details]
(2007)'Ammonium scanning in an enzyme active site - The chiral specificity of aspartyl-tRNA synthetase'
Thompson, D,Lazennec, C,Plateau, P,Simonson, T; (2007) 'Ammonium scanning in an enzyme active site - The chiral specificity of aspartyl-tRNA synthetase'. The Journal of Biological Chemistry, 282 :30856-30868 [DOI] [Details]

Conference Publications

 YearPublication
(2009)DRUGS OF THE FUTURE
Miller, Charlotte and Thompson, Damien and McCarthy, Florence O (2009) DESIGN \& SYNTHESIS OF NOVEL ELLIPTICINE C-KIT KINASE INHIBITORS DRUGS OF THE FUTURE , pp.102-102 [Details]
(2009)ABSTRACTS OF PAPERS OF THE AMERICAN CHEMICAL SOCIETY
Simonson, Thomas and Thompson, Damien and Lopes, Anne (2009) Engineering enzyme: substrate specificity: From free energy simulations to computational protein design ABSTRACTS OF PAPERS OF THE AMERICAN CHEMICAL SOCIETY [Details]

Professional Activities

Employment

 EmployerPositionFrom / To
Ecole Polytechnique Postdoctoral Fellow in Computational Biophysics01-JAN-03 / 01-JAN-03
University of Limerick Lecturer Physics Department01-JAN-13 /
Tyndall National Institute Research Scientist01-JAN-05 /

Education

 YearInstitutionQualificationSubject
2003University of Limerick PhDComputational Chemistry

Teaching Activities

Modules Taught

 Term (ID))TitleLinkSubject
2015Interfaces, Microscopy & Modelling CM4020Interfaces, Microscopy & Modelling

Contact details

Search profiles by name

Search profiles by topic

Top