Browse by Laboratory/Group/Centre

2024

Worthington, Cameron and Holtzhausen, Leon and Kuttel, Michelle (2024) User-centred design and development of a web-based Western Cape substance use assessment tool(WC-SUDAT), Proceedings of Proceedings of South African Institute for Computer Scientists and Information Technologists Conference (SAICSIT 2024), July 15–17 2024, Gqeberha, South Africa.

Gasperini, Gianmarco and Massai, Luisa and De Simone, Daniele and Raso, Maria Michelina and Palmieri, Elena and Alfini, Renzo and Rossi, Omar and Ravenscroft, Neil and Kuttel, Michelle M. and Micoli, Francesca (2024) O-Antigen decorations in Salmonella enterica play a key role in eliciting functional immune responses against heterologous serovars in animal models, Front. Cell. Infect. Microbiol., Sec. Molecular Bacterial Pathogenesis, 14, Frontiers.

Anderson, Taigh and Jiang, Hao and Ní Cheallaigh, Aisling and Bengtsson, Dennis and Oscarson, Stefan and Cairns, Chantelle and St. Michael, Frank and Cox, Andrew and Kuttel, Michelle M. (2024) Formation and immunological evaluation of Moraxella catarrhalis glycoconjugates based on synthetic oligosaccharides, Carbohydrate Polymers, 332, 121928, Elsevier.

2023

Richardson, Nichole I. and Ravenscroft, Neil and Kuttel, Michelle M. (2023) Conformational comparisons of Pasteurella multocida types B and E and structurally related capsular polysaccharides, Glycobiology, 33, 745–754, Oxford University Press.

2022

Fitzhenry, Charles and Khatieb, Tanweer and Marais, Patrick and Marquard, Stephen (2022) Low Resource, Post-processed Lecture Recording from 4K Video Streams, Proceedings of 43rd Conference of the South African Institute of Computer Scientists and Information Technologists (SAICSIT), 18-20 July 2022, Cape Town, EPiC Series in Computing, 85, 15-35, EPiC.

Kuttel, M.M. (2022) Comparative molecular modelling of capsular polysaccharide conformations in Streptococcus suis serotypes 1, 2, 1/2 and 14 identifies common epitopes for antibody binding., Front. Mol. Biosci., 9, Frontiers.

Richardson, N. I. and Kuttel, M. M. and Ravenscroft, N. (2022) Modeling of pneumococcal serogroup 10 capsular polysaccharide molecular conformations provides insight into epitopes and observed cross-reactivity., Front. Mol. Biosci., 9, Frontiers.

Akher, F. B. and Farrokhzadeh, A. and Ravenscroft, N. and Kuttel, M. M. (2022) Deciphering the Mechanism of Binding Selectivity of Chlorofluoroacetamide-Based Covalent Inhibitors toward L858R/T790M Resistance Mutation., J. Chem. Inf. Model., 62, 997-1013, American Chemical Society.

Hao, L. and Kuttel, M. M. and Ravenscroft, N. and Thompson, A. and Prasad, A. K. and Gangollo, S. and Tan, C. and Cooper, D. and Watson, W. and Liberator, P. and Pride, M. and Jansen, K. U. and Anderson, A. S. and Scully, I. (2022) Streptococcus pneumoniae serotype 15B polysaccharide conjugate elicits a cross-functional immune response against serotype 15C but not 15A., Vaccine, 40, 4872-4880, Elsevier.

Lazar, R. D. and Akher, F. B. and Ravenscroft, N. and Kuttel, M. M. (2022) Carbohydrate Force Fields: The Role of Small Partial Atomic Charges in Preventing Conformational Collapse., J. Chem. Theory Comput., 18, 1156-1172, American Chemical Society.

2021

Richardson, N. I. and Kuttel, M. M. and St Michael, F. and Carins, C. and Cox, A. D. and Ravenscroft, N. (2021) Cross-reactivity of Haemophilus influenzae type a and b polysaccharides: molecular modeling and conjugate immunogenicity studies., Glycoconjugate Journal, Springer Verlag (Germany).

Truda, Gianluca and Marais, Patrick (2021) Evaluating warfarin dosing models on multiple datasets with a novel software framework and evolutionary optimisation, Journal of Biomedical Informatics, 113, Elsevier.

Kuttel, M. M. (2021) No expiration date., Nature Astronomy, 5, 986–987, Springer.

Kuttel, Michelle M. and Ravenscroft, Neil and Berti, Francesco (2021) Molecular modeling provides insights into the loading of sialic acid-containing antigens onto CRM197: the role of chain flexibility in conjugation efficiency and glycoconjugate architecture., Glycoconjugate Journal, 38, 411–419, Springer.

Richardson, N. I. and Ravenscroft, N. and Arato, V. and Oldrini, D. and Micoli, F. and Kuttel, M. M. (2021) Conformational and Immunogenicity Studies of the Shigella flexneri Serogroup 6 O-Antigen: The Effect of O-Acetylation., Vaccines, 9, 432, MDPI.

2020

Balekaki, Gerald Nathan and Kuttel, Michelle and Berman, Sonia and Blyth, Sarah and Schroeder, Anja (2020) Performance evaluation of an integrated RFI database for the MeerKAT/SKA radio telescope, Proceedings of Annual Conference of the South African Institute for Computer Scientists and Information Technologists (SAICSIT 2020), 14-16 September 2020, Cape Town, South Africa, Association for Computing Machinery.

Pitcher, Courtney and Marais, Patrick and Darlow, Luke (2020) Matching Fingerprints with a Toroidal Iterative Closest Point Algorithm, Proceedings of Conference of the South African Institute of Computer Scientists and Information Technologists, 14-16 September, Cape Town, 51-57, ACM.

Hlozek, Jason and Owen, Sarah and Ravenscroft, Neil and Kuttel, Michelle M. (2020) Molecular Modeling of the Shigella flexneri Serogroup 3 and 5 O-Antigens and Conformational Relationships for a Vaccine Containing Serotypes 2a and 3a., Vaccines, 8, MDPI.

Kuttel, Michelle M. and Casadevall, Arturo and Oscarson, Stefan (2020) Cryptococcus neoformans capsular GXM conformation and epitope presentation: a molecular modelling study, Molecules, 25, MDPI.

Akher, Farideh Badichi and Farrokhzadeh, Abdolkarim and Ravenscroft, Neil and Kuttel, Michelle (2020) Mechanistic Study of Potent Fluorinated EGFR Kinase Inhibitors with a Quinazoline Scaffold against L858R/T790M/C797S Resistance Mutation: Unveiling the Fluorine Substituents Cooperativity Effect on the Inhibitory Activity., Journal of Physical Chemistry B, 124, 5813–5824, American Chemical Society.

Hlozek, Jason and Ravenscroft, Neil and Kuttel, Michelle M. (2020) Effects of Glucosylation and O-Acetylation on the Conformation of Shigella flexneri Serogroup 2 O-Antigen Vaccine Targets, Journal of Physical Chemistry B, 124, 2806−2814, American Chemical Society.

Fourie, Alexander Rees (2020) Computational Analysis of Escherichia coli O25 and O25b Carbohydrate Antigens using the CHARMM36 and GLYCAM06 Force Fields, MSc.

2019

Balekaki, Gerald and Kuttel, Michelle and Schroeder, Anja and Blyth, Sarah and Berman, Sonia (2019) A scalable database model of RFI data for the MeerKAT radio telescope, Proceedings of South African Institute for Computer Scientists and Information Technologists Conference (SAICSIT 2019), 16-18 September 2019, Skukuza, South Africa, ACM New York.

White, Michael and Marais, Patrick (2019) Supervised learning and image processing for efficient malaria detection, Proceedings of South African Forum for AI Research (FAIR), 4-6 December 2019, Cape Town, 161-172.

Kuttel, Michelle M. and Ravenscroft, Neil (2019) Conformation and cross-protection in Group B Streptococcus serotype III and Streptococcus pneumoniae serotype 14: a molecular modeling study, Pharmaceuticals, 12, MDPI.

Akher, Farideh Badichi and Farrokhzadeh, Abdolkarim and Ravenscroft, Neil and Kuttel, Michelle (2019) A Mechanistic Study of a Potent and Selective Epidermal Growth Factor Receptor Inhibitor against the L858R/T790M Resistance Mutation, Biochemistry, 58, 4246-4259, American Chemical Society.

Hitri, K. and Kuttel, M. and De Benedetto, G. I. and Lockyer, K. and Gao, F. and Hansal, P. and Rudd, T. R. and Beamish, E. and Rijpkema, S. and Ravenscroft, N. and Bolgiano, B. (2019) O-acetylation of typhoid capsular polysaccharide confers polysaccharide rigidity and immunodominance by masking additional epitopes., Vaccine, 37, 3866-3875, Elsevier.

Hlozek, Jason and Ravenscroft, Neil and Kuttel, Michelle (2019) Modeling the conformations of Neisseria meningitidis serogroup a CPS and a carba-analogue: Implications for vaccine development, Carbohydrate Research, 486, Elsevier.

Mabakane, Mabule Samuel (2019) Effective visualisation of callgraphs for optimisation of parallel programs: a design study, PhD.

Moyo, Edmore (2019) Accelerated cooperative co-evolution on multi-core architectures, MSc.

Pinska, Adrianna (2019) Addition of flexible linkers to GPU-accelerated coarse-grained simulations of protein-protein docking, MSc.

2018

Kuttel, Assoc. Pro Michelle and Ravenscroft, Assoc. Pro Neil (2018) The Role of Molecular Modeling in Predicting Carbohydrate Antigen Conformation and Understanding Vaccine Immunogenicity., Carbohydrate-Based Vaccines: From Concept to Clinic. ACS Symposium Series, Vol. 1290., 139-173, American Chemical Society.

Hlozek, Mr Jason and Kuttel, Assoc. Pro Michelle and Ravenscroft, Assoc. Pro Neil (2018) Conformations of Neisseria meningitidis serogroup A and X polysaccharides: the effects of chain length and O-acetylation., Carbohydrate Research, 465, 44-51, Elsevier.

Chigudu, Kumbirai (2018) Design of a prototype mobile application interface for efficient accessing of electronic laboratory results by health clinicians, MPhil.

Geffen, Nathan (2018) Algorithms for efficiently and effectively matching agents in microsimulations of sexually transmitted infections, PhD.

2017

Rampersad, Ms Laurisha and Blyth, Dr Sarah and Elson, Ed and Kuttel, Michelle M. (2017) Improving the usability of scientific software with participatory design: a new interface design for radio astronomy visualisation software, Proceedings of SAICSIT '17 Proceedings of the South African Institute of Computer Scientists and Information Technologists, September 26 - 28, 2017, Thaba 'Nchu, South Africa.

Kuttel, Assoc. Pro Michelle M. and Timol, Mr Zaheer and Ravenscroft, Assoc. Pro Neil (2017) Cross protection in Neisseria meningitides serogroups Y and W polysaccharides: a comparative conformational analysis., Carbohydrate Research, 446, 40-47, Elsevier.

Kuttel, Assoc. Pro Michelle M. and Cescutti, Prof. Paola and Distefano, Mr M. and Rizzo, Prof. Roberto (2017) Fluorescence and NMR spectroscopy together with molecular simulations reveal amphiphilic characteristics of a Burkholderia biofilm exopolysaccharide, Journal of Biological Chemistry, 292, 11034-11042, The American Society for Biochemistry and Molecular Biology, Inc..

Ravenscroft, Assoc. Pro Neil and Omar, A. and Hlozek, J. and Edmonds-Smith, C. and Follador, R. and Serventi, F. and Kuttel, M. M. and Cescutti, P. and Faridmoayer, A. (2017) Genetic and structural elucidation of capsular polysaccharides from Streptococcus pneumoniae serotype 23A and 23B, and comparison to serotype 23F., Carbohydrate Research, 450, 19-29, Elsevier.

2016

Bellairs, James and Hlozek, Jason and Egan, Timothy and Kuttel, Michelle (2016) An eHealth Android Application for Mobile Analysis of Microplate Assays, Proceedings of IST-Africa 2016, 11-13 June 2016, Durban, South Africa, IEEE Xplore.

Gueorguiev, Mr Victor and Kuttel, Assoc. Pro Michelle (2016) Implementation, Validation and Profiling of a Genetic Algorithm for Molecular Conformational Optimization, Proceedings of Proceedings of the Annual Conference of the South African Institute of Computer Scientists and Information Technologists (SAICSIT 2016), September 2016, Johannesburg, ACM New York, NY, USA.

Silubonde, Sunganani and Warner, Digby and Kuttel, Michelle (2016) Effective Visualization of Tuberculosis Three-Drug Assays: A Design Study, Proceedings of Annual Conference of the South African Institute of Computer Scientists and Information Technologists (SAICSIT 2016), September 2016, Johannesburg, South Africa, ACM New York, NY, USA.

Kuttel, Michelle M. and Stahle, Jonas and Widmalm, Goran (2016) CarbBuilder: Software for Building Molecular Models of Complex Oligo- and Polysaccharide Structures, Journal of Computational Chemistry, 37, 2098-2105, Wiley.

2015

Mulumba, Mr Patrick and Gain, A/Prof James and Marais, A/Prof Patrick and Woudt, A/Prof Patrick (2015) Scientific Visualization of Radio Astronomy Data using Gesture Interaction., Proceedings of Astronomical Data Analysis Software and Systems XXIV (ADASS XXIV), September 2015, 145-145.

Versfeld, Erin and Foster, James and Kuttel, Assoc. Pro Michelle (2015) Comparison of effectiveness of two mobile application designs for encouraging children to read., Proceedings of 2015 Annual Research Conference of the South African Institute of Computer Scientists and Information Technologists (SAICSIT 2015), 28-30 September 2015, Stellenbosch, South Africa, ACM.

Wang, Sunrise and Gain, James and Nitschke, Geoff (2015) Controlling Crowd Simulations using Neuro-Evolution, Proceedings of Proceedings of the 2015 Annual Conference on Genetic and Evolutionary Computation, 11-15 July 2015, Madrid, Spain.

Kuttel, Michelle M. and Jackson, Graham E. and Mafata, Mpho and Ravenscroft, Neil (2015) Capsular polysaccharide conformations in pneumococcal serotypes 19F and 19A, Carbohydrate Research, 406, 27-33, Elsevier.

Badenhorst, Scott (2015) Acceleration of the noise suppression component of the DUCHAMP source-finder., MSc.

Chang, Genevieve (2015) Designing an effective user interface for the Android tablet environment, MSc.

Schollar, Christopher (2015) RFI Monitoring for the MeerKAT Radio Telescope, MSc.

2014

Kuttel, Michelle and Gordon, Marc and Ravenscroft, Neil (2014) Comparative simulation of pneumococcal serogroup 19 polysaccharide repeating units with two carbohydrate force fields, Carbohydrate Research, 390, 20-27, Elsevier.

Perkins, Simon and Questiaux, Jacques and Finniss, Stephen and Tyler, Robin and Byth, Sarah and Kuttel, Michelle (2014) Scalable desktop visualisation of very large radio astronomy data cubes, New Astronomy, 30, 1-7, Elsevier.

Gordon, Marc (2014) Force Field Comparison through Computational Analysis of Capsular Polysaccharides of Streptococcus Pneumoniae Serotypes 19A and F, MSc.

Potgieter, Mr Andrew (2014) A Parallel Multidimensional Weighted Histogram Analysis Method, MSc.

Wood, Daniel (2014) Fast Galactic Structure Finding using Graphics Processing Units, MSc.

2013

Baxter, Richard J. and Marais, Patrick and Kuttel, Michelle (2013) GPU-based Acceleration of Radio Interferometry Point Source Visibility Calculations in the MEQtrees Framework, Astronomical Data Analysis Software and Systems XXII, 5-8 November 2012, Champaign, IL USA, ASP Conference Series, 475.

Badenhorst, Scott J. and Blyth, Sarah and Kuttel, Michelle M. (2013) Acceleration of Automated HI Source Extraction, Proceedings of Astronomical Data Analysis Software and Systems XXII, ASP Conference Series, 5-8 November 2012, Champaign, IL, USA, 475, 53-59, Astronomical Society of the Pacific.

Laidler, Christopher and Kuttel, Michelle M. (2013) Detection of binary pulsars with GPU-accelerated sinusoidal Hough transformations., Proceedings of Astronomical Data Analysis Software and Systems XXII, ASP Conference Series, 5-8 November 2012, Champaign, IL, USA, 475, 83-87.

Baxter, Richard (2013) GPU-based Acceleration of Radio Interferometry Point Source Visibility Simulations in the MeqTrees Framework, MSc.

Clough, Mr Duncan (2013) Lattice Boltzmann Liquid Simulations on Graphics Hardware, MSc.

Mathai, Neann (2013) Molecular modelling of the Streptococcus Pneumoniae serogroup 6 capsular polysaccharide antigens., MSc.

2012

Kuttel, Michelle and Ravenscroft, Neil and Foschiatti, Michaela and Cescutti, Paola and Rizzo, Roberto (2012) Conformational properties of two exopolysaccharides produced by Inquilinus limosus, a cystic fibrosis lung pathogen, Carbohydrate Research, 350, 40-48, Elsevier.

2011

Kuttel, Michelle and Mao, Yue and Lundberg, Magnus and Widmalm, Goran (2011) CarbBuilder: an adjustable tool for building 3D molecular structures of carbohydrates for molecular simulation., Proceedings of 7th IEEE International Conference on e-Science, 5-8 December 2011, Stockholm, Sweden.

Merry, Dr Bruce and Held, Mr Christoph (2011) MLS reconstruction from noisy point sets, CS11-04-00, Department of Computer Science, University of Cape Town.

Kuttel, Dr Michelle (2011) The Conformational Free Energy of Carbohydrates, Mini-Reviews in Organic Chemistry, 8, 256-262, Bentham Science.

Tunbridge, Dr Ian (2011) Graphics Processing Unit Accelerated Coarse-Grained Protein-Protein Docking, PhD.

2010

Clough, Duncan and Riviera, Stefano and Kuttel, Michelle and Geddes, Vincent and Marais, Patrick (2010) Panopticon: A Scalable Monitoring System, Proceedings of Proceedings of South African Institute for Computer Scientists and Information Technologists Conference (SAICSIT 2010), 11-13 October 2010.

Jansen van Vuuren, Mr J. and Kuttel, Dr M. and Gain, Assoc. Pro J. (2010) Visualization of Solution Sets from Automated Docking of Molecular Structures, Proceedings of Proceedings of Afrigraph2010: the 7th International Conference on Virtual Reality, Computer Graphics, Visualization and Interaction in Africa, 21-23 June 2010, Franschoek, South Africa.

Tunbridge, Ian and Best, Robert B. and Gain, James and Kuttel, Michelle M. (2010) Simulation of Coarse-Grained Protein-Protein Interactions with Graphics Processing Units, Journal of Chemical Theory and Computation, 6, 3588-3600, American Chemical Society.

van den Berg, Rudolf (2010) Force-extension of the Amylose Polysaccharide, MSc.

2009

Cross, Simon and Kuttel, Dr Michelle and Stone, Mr John and Gain, Dr James (2009) Visualisation of cyclic and multi-branched molecules with VMD, Journal of Molecular Graphics and Modelling, 28, 131-139, Elsevier.

Zawaira, Alexander and Gallotta, Marco and Beeton-Kempen, Natasha and Coulson, Lauren and Marais, Patrick and Kuttel, Michelle and Blackburn, Johnathan (2009) Exhaustive computational search of ionic-charge clusters that mediate interactions between mammalian cytochrome P450 (CYP) and P450-oxidoreductase (POR) proteins, Computational Biology and Chemistry, Elsevier.

Cross, Simon and Kuttel, Michelle M. and Stone, John E. and Gain, James E. (2009) Visualisation of Cyclic and Multi-Branched Molecules with VMD.

McMahon, Mr Peter (2009) Accelerating Genomic Sequence Alignment using High Performance Reconfigurable Computers, MSc.

2008

Kuttel, Dr Michelle M. (2008) Conformational free energy maps for globobiose (a-D-Galp-(1-4)-b-D-Galp) in implicit and explict aqueous solution, Carbohydrate Research, 343, 1091-1098, Elsevier.

McMahon, Peter (2008) Accelerating Genomic Sequence Alignment using High Performance Reconfigurable Computers, MSc.

2007

Nakashole, Ndapandula and Suleman, Hussein and Pedzai, Calvin (2007) Dynamic Role Allocation for Small Search Engine Clusters, Proceedings of Annual Research Conference of the South African Institute of Computer Scientists and Information Technologists (SAICSIT 2007), 2-3 October 2007, Port Alfred, South Africa, ACM.

Suleman, Hussein (2007) Digital Libraries Without Databases: The Bleek and Lloyd Collection, Proceedings of Research and Advanced Technology for Digital Libraries, 11th European Conference (ECDL 2007), 16-19 September 2007, Budapest, Hungary, 392-403, Springer.

2006

Omar, Muammar Zamir and Suleman, Dr Hussein (2006) Component-based Digital Library Scalability using Cluster Computing, Proceedings of 8th Annual Conference on WWW Applications, 6 to 8 September 2006, Free State.

Suleman, Hussein (2006) Parallelising Harvesting, Proceedings of 9th International Conference on the Asian Digital Library, 27-30 November 2006, Kyoto, Japan.

Kuttel, Dr Michelle M. and Gain, Dr James and Burger, Anton and Eborn, Ian (2006) Techniques for visualization of carbohydrate molecules, Journal of Molecular Graphics and Modelling, 25, 380-388, Elsevier.