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Number of items: 73.

Article

Murphy, David, Reche, Pedro and Flower, Darren R (2018). Selection‐based Design of in silico Dengue Epitope Ensemble Vaccines. Chemical Biology and Drug Design ,

Reche, Pedro, Flower, Darren R., Fridkis-Hareli, Masha and Hoshino, Yoshihiko (2018). Pepti de-Based Immunotherapeutics and Vaccines 2017. Journal of Immunology Research, 2018 ,

Shah, Preksha, Mistry, Jaymisha, Reche, Pedro A., Gatherer, Derek and Flower, Darren R (2018). In silico design of Mycobacterium tuberculosis epitope ensemble vaccines. Molecular Immunology, 97 , pp. 56-62.

Doytchinova, Irini A. and Flower, Darren R. (2018). In silico prediction of cancer immunogens:current state of the art. Immunology, 19 (1),

Damfo, Shymaa Abdullah, Reche, Pedro A., Gatherer, Derek and Flower, Darren R (2017). In silico design of knowledge-based Plasmodium falciparum epitope ensemble vaccines. Journal of Molecular Graphics and Modelling, Early ,

Laurie, Jason, Chattopadhyay, Amit K and Flower, Darren R (2017). Protein lipograms. Journal of Theoretical Biology, 430 , pp. 109-116.

Mumtaz, Shahzad, Nabney, Ian T. and Flower, Darren R. (2017). Scrutinizing human MHC polymorphism:supertype analysis using Poisson-Boltzmann electrostatics and clustering. Journal of Molecular Graphics and Modelling, 77 , pp. 130-136.

Mistry, Jaymisha and Flower, Darren R (2017). Designing Epitope Ensemble Vaccines against TB by Selection:Prioritizing Antigens using Predicted Immunogenicity. Bioinformation, 13 (7), pp. 220-223.

Sheikh, Qamar M., Gatherer, Derek, Reche, Pedro A. and Flower, Darren R. (2016). Towards the knowledge-based design of universal influenza epitope ensemble vaccines. Bioinformatics, 32 (21), pp. 3233-3239.

Audain, Enrique, Ramos, Yassel, Hermjakob, Henning, Flower, Darren R. and Perez-Riverol, Yasset (2016). Accurate estimation of isoelectric point of protein and peptide based on amino acid sequences. Bioinformatics, 32 (6), pp. 821-827.

Pappalardo, Francesco, Flower, Darren, Russo, Giulia, Pennisi, Marzio and Motta, Santo (2015). Computational modelling approaches to vaccinology. Pharmacological Research, 92 , pp. 40-45.

Bunkute, Egle, Cummins, Christopher, Crofts, Fraser, Bunce, Gareth, Nabney, Ian T. and Flower, Darren R. (2015). PIP-DB:the protein isoelectric point database. Bioinformatics, 31 (2), pp. 295-296.

Molero-Abraham, Magdalena, Glutting, John-Paul, Flower, Darren R., Lafuente, Esther M. and Reche, Pedro A. (2015). EPIPOX:immunoinformatic characterization of the shared T-cell epitome between variola virus and related pathogenic orthopoxviruses. Journal of Immunology Research, 2015 ,

Reche, Pedro, Flower, Darren R., Fridkis-Hareli, Masha and Hoshino, Yoshihiko (2015). Peptide-based immunotherapeutics and vaccines 2015. Journal of Immunology Research, 2015 ,

Chattopadhyay, Amit K., Nasiev, Diar and Flower, Darren R. (2015). A statistical physics perspective on alignment-independent protein sequence comparison. Bioinformatics, 31 (15), pp. 2469-2474.

Reche, Pedro A., Fernandez-Caldas, Enrique, Flower, Darren R., Fridkis-Hareli, Masha and Hoshino, Yoshihiko (2014). Peptide-based immunotherapeutics and vaccines. Journal of Immunology Research, 2014 ,

Molero-Abraham, Magdalena, Lafuente, Esther M., Flower, Darren R. and Reche, Pedro A. (2013). Selection of conserved epitopes from hepatitis C virus for pan-populational stimulation of T-cell responses. Clinical and Developmental Immunology, 2013 ,

Flower, Darren R. (2013). The immune system as drug target. Immunology and Immunogenetics Insights, 5 ,

Dimitrov, Ivan, Flower, Darren R. and Doytchinova, Irini (2013). AllerTOP - a server for in silico prediction of allergens. BMC Bioinformatics, 14 (Suppl.),

Patronov, Atanas, Dimitrov, Ivan, Flower, Darren R. and Doytchinova, Irini (2012). Peptide binding to HLA-DP proteins at pH 5.0 and pH 7.0:a quantitative molecular docking study. BMC Structural Biology, 12 ,

Flower, Darren R. (2012). On the utility of alternative amino acid scripts. Bioinformation, 8 (12), pp. 539-542.

Rai, Jade, Lok, Ka In, Mok, Chun Yin, Mann, Harvinder, Noor, Mohammed, Patel, Pritesh and Flower, Darren R (2012). Immunoinformatic evaluation of multiple epitope ensembles as vaccine candidates:E coli 536. Bioinformation, 8 (6), pp. 272-275.

Doytchinova, Irini, Petkov, Peicho, Dimitrov, Ivan, Atanasova, Mariyana and Flower, Darren R (2011). HLA-DP2 binding prediction by molecular dynamics simulations. Protein Science, 20 (11), pp. 1918-28.

Patronov, Atanas, Dimitrov, Ivan, Flower, Darren R and Doytchinova, Irini (2011). Peptide binding prediction for the human class II MHC allele HLA-DP2:a molecular docking approach. BMC Structural Biology, 11 (32),

Flower, Darren R, Macdonald, Isabel K., Ramakrishnan, Kamna, Davies, Matthew N. and Doytchinova, Irini A. (2010). Computer aided selection of candidate vaccine antigens. Immunome Research, 6 (Suppl.), S1-S16.

Flower, Darren R, Phadwal, Kanchan, Macdonald, Isabel K., Coveney, Peter V., Davies, Matthew N. and Wan, Shunzhou (2010). T-cell epitope prediction and immune complex simulation using molecular dynamics:state of the art and persisting challenges. Immunome Research, 6 (Suppl.), S4.

Macdonald, Isabel K., Harkiolaki, Maria, Hunt, Lawrence, Connelley, Timothy, Carroll, A. Victoria, MacHugh, Niall D., Graham, Simon P., Jones, E. Yvonne, Morrison, W. Ivan, Flower, Darren R and Ellis, Shirley A. (2010). MHC class I bound to an immunodominant Theileria parva epitope demonstrates unconventional presentation to T cell receptors. Plos Pathogens, 6 (10), e1001149.

Dimitrov, Ivan, Garnev, Panayot, Flower, Darren R and Doytchinova, Irini (2010). EpiTOP—a proteochemometric tool for MHC class II binding prediction. Bioinformatics, 26 (16), pp. 2066-8.

Ramakrishnan, Kamna and Flower, Darren R (2010). Discriminating antigen and non-antigen using proteome dissimilarity II:viral and fungal antigens. Bioinformation, 5 (1), pp. 35-38.

Ramakrishnan, Kamna and Flower, Darren R (2010). Discriminating antigen and non-antigen using proteome dissimilarity III:tumour and parasite antigens. Bioinformation, 5 (1), pp. 35-38.

Ramakrishnan, Kamna and Flower, Darren R (2010). Discriminating antigen and non-antigen using proteome dissimilarity:bacterial antigens. Bioinformation, 4 (10), pp. 445-7.

Joosten, Simone A., van Meijgaarden, Krista E., van Weeren, Pascale C., Kazi, Fatima, Geluk, Annemieke, Savage, Nigel D.L., Drijfhout, Jan W., Flower, Darren R, Hanekom, Willem A., Klein, Michèl R. and Ottenhoff, Tom H.M. (2010). Mycobacterium tuberculosis peptides presented by HLA-E molecules are targets for human CD8 T-cells with cytotoxic as well as regulatory activity. Plos Pathogens, 6 (2), e1000782.

Ansari, Hifzur R., Flower, Darren R and Raghava, G.P.S. (2010). AntigenDB:an immunoinformatics database of pathogen antigens. Nucleic Acids Research, 38 (Suppl.), D847-D853.

Dimitrov, Ivan, Garnev, Panayot, Flower, Darren R and Doytchinova, Irini (2010). MHC class II binding prediction:a little help from a friend. Journal of Biomedicine and Biotechnology, 2010 ,

Davies, Matthew N., Bayry, Jagadeesh, Tchilian, Elma Z., Vani, Janakiraman, Shaila, Melkote S., Forbes, Emily K., Draper, Simon J., Beverley, Peter C.L., Tough, David F. and Flower, Darren R. (2009). Toward the discovery of vaccine adjuvants:coupling in silico screening and in vitro analysis of antagonist binding to human and mouse CCR4 receptors. PLoS ONE, 4 (11),

Walshe, Valerie A., Hattotuwagama, Channa K., Doytchinova, Irini A., Wong, MaiLee, Macdonald, Isabel K., Mulder, Arend, Claas, Frans H.J., Pellegrino, Pierre, Turner, Jo, Williams, Ian, Turnbull, Emma L., Borrow, Persephone and Flower, Darren R (2009). Integrating in silico and in vitro analysis of peptide binding affinity to HLA-Cw*0102:a bioinformatic approach to the prediction of new epitopes. PLoS ONE, 4 (11),

Mizutori, Y., Nagayama, Y., Flower, D., Misharin, A., Aliesky, H.A., Rapoport, B. and McLachlan, S.M. (2008). Role of the transgenic human thyrotropin receptor A-subunit in thyroiditis induced by A-subunit immunization and regulatory T cell depletion. Clinical and Experimental Immunology, 154 (3), pp. 305-315.

O'Brien, Cathal, Flower, Darren R and Feighery, Conleth (2008). Peptide length significantly influences in vitro affinity for MHC class II molecules. Immunome Research, 4 (6),

Davies, Matthew N., Secker, Andrew, Halling-Brown, Mark, Moss, David S., Freitas, Alex A., Timmis, Jon, Clark, Edward and Flower, Darren R (2008). GPCRTree:online hierarchical classification of GPCR function. BMC Research Notes, 1 , p. 67.

Doytchinova, Irini A. and Flower, Darren R. (2007). VaxiJen:a server for prediction of protective antigens, tumour antigens and subunit vaccines. BMC Bioinformatics, 8 ,

Salomon, Jesper and Flower, Darren R. (2006). Predicting class II MHC-Peptide binding:a kernel based approach using similarity scores. BMC Bioinformatics, 7 ,

Wan, Ji, Liu, Wen, Xu, Qiqi, Ren, Yongliang, Flower, Darren R. and Li, Tongbin (2006). SVRMHC prediction server for MHC-binding peptides. BMC Bioinformatics, 7 , p. 463.

Taylor, Paul D., Toseland, Christopher P., Attwood, Teresa K. and Flower, Darren R. (2006). TATPred:a Bayesian method for the identification of twin arginine translocation pathway signal sequences. Bioinformation, 1 (5), pp. 184-187.

Liu, Wen, Meng, Xiangshan, Xu, Qiqi, Flower, Darren R. and Li, Tongbin (2006). Quantitative prediction of mouse class I MHC peptide binding affinity using support vector machine regression (SVR) models. BMC Bioinformatics, 7 (3), pp. 182-194.

Davies, Matthew N., Hattotuwagama, Channa K., Moss, David S., Drew, Michael G.B. and Flower, Darren R. (2006). Statistical deconvolution of enthalpic energetic contributions to MHC-peptide binding affinity. BMC Structural Biology, 6 (5),

Doytchinova, Irini A., Guan, Pingping and Flower, Darren R. (2006). EpiJen:a server for multistep T cell epitope prediction. BMC Bioinformatics, 7 (3), pp. 131-141.

Toseland, Christopher P., McSparron, Helen, Davies, Matthew N. and Flower, Darren R. (2006). PPD v1.0 - an integrated, web-accessible database of experimentally determined protein pKa values. Nucleic Acids Research, 34 (Suppl.), D199-D203.

Taylor, Paul D., Toseland, Christopher P., Attwood, Teresa K. and Flower, Darren R. (2006). Alpha helical trans-membrane proteins:enhanced prediction using a Bayesian approach. Bioinformation, 1 (6), pp. 234-236.

Taylor, Paul D., Toseland, Christopher P., Attwood, Teresa K. and Flower, Darren R. (2006). Beta barrel trans-membrane proteins:enhanced prediction using a Bayesian approach. Bioinformation, 1 (6), pp. 231-233.

Taylor, Paul D., Attwood, Teresa K. and Flower, Darren R. (2006). Combining algorithms to predict bacterial protein sub-cellular location:parallel versus concurrent implementations. Bioinformation, 1 (8), pp. 285-289.

Hattotuwagama, Channa K. and Flower, Darren R. (2006). Empirical prediction of peptide octanol-water partition coefficients. Bioinformation, 1 (7), pp. 257-259.

Taylor, Paul D., Toseland, Christopher P., Attwood, Teresa K. and Flower, Darren R. (2006). LIPPRED:a web server for accurate prediction of lipoprotein signal sequences and cleavage sites. Bioinformation, 1 (5), pp. 176-179.

Taylor, Paul D., Attwood, Teresa K. and Flower, Darren R. (2006). Multi-class subcellular location prediction for bacterial proteins. Bioinformation, 1 (7), pp. 260-264.

Thompson, Sarah J., Hattotuwagama, Channa K., Holliday, John D. and Flower, Darren R. (2006). On the hydrophobicity of peptides:comparing empirical predictions of peptide log P values. Bioinformation, 1 (7), pp. 237-241.

Taylor, Paul D., Attwood, Teresa K. and Flower, Darren R. (2006). Toward bacterial protein sub-cellular location prediction:single-class discrimminant models for all gram- and gram+ compartments. Bioinformation, 1 (8), pp. 276-280.

Taylor, Paul D., Toseland, Christopher P., Attwood, Teresa K. and Flower, Darren R. (2006). A predictor of membrane class:discriminating α-helical and β-barrel membrane proteins from non-membranous proteins. Bioinformation, 1 (6), pp. 208-213.

Doytchinova, Irini, Hemsley, Shelley and Flower, Darren R. (2004). Transporter associated with antigen processing preselection of peptides binding to the MHC:a bioinformatic evaluation. Journal of Immunology, 173 (11), pp. 6813-6819.

Wan, Shunzhou, Coveney, Peter and Flower, Darren R. (2004). Large-scale molecular dynamics simulations of HLA-A*0201 complexed with a tumor-specific antigenic peptide:can the α3 and β2m domains be neglected? Journal of Computational Chemistry, 25 (15), pp. 1803-1813.

Jones, Nicola A., Wei, Xiping, Flower, Darren R., Wong, MaiLee, Michor, Franziska, Saag, Michael S., Hahn, Beatrice H., Nowak, Martin A., Shaw, George M. and Borrow, Persephone (2004). Determinants of human immunodeficiency virus type 1 escape from the primary CD8+ cytotoxic T lymphocyte response. Journal of Experimental Medicine, 200 (10), pp. 1243-1256.

Hattotuwagama, Channa K., Guan, Pingping, Doytchinova, Irini A. and Flower, Darren R. (2004). New horizons in mouse immunoinformatics:reliable in silico prediction of mouse class I histocompatibility major complex peptide binding affinity. Organic and Biomolecular Chemistry, 2 (22), pp. 3274-3283.

Doytchinova, Irini A., Walshe, Valerie A., Jones, Nicola A., Gloster, Simone E., Borrow, Persephone and Flower, Darren R. (2004). Coupling in silico and in vitro analysis of peptide-MHC binding:a bioinformatic approach enabling prediction of superbinding peptides and anchorless epitopes. Journal of Immunological Methods, 172 (12), pp. 7495-7502.

Doytchinova, Irini A., Guan, Pingping and Flower, Darren R. (2004). Identifiying human MHC supertypes using bioinformatic methods. Journal of Immunology, 172 (7), pp. 4314-4323.

Hattotuwagama, Channa K., Guan, Pingping, Doytchinova, Irini A., Zygouri, Christianna and Flower, Darren R. (2004). Quantitative online prediction of peptide binding to the major histocompatibility complex. Journal of Molecular Graphics and Modelling, 22 (3), pp. 195-207.

Doytchinova, Irini A., Taylor, Paul and Flower, Darren R. (2003). Proteomics in vaccinology and immunobiology:an informatics perspective of the immunone. Journal of Biomedicine and Biotechnology, 2003 (5), pp. 267-290.

Flower, Darren R. (2003). Towards in silico prediction of immunogenic epitopes. Trends in Immunology, 24 (12), pp. 667-674.

Doytchinova, I.A. and Flower, D.R. (2003). Towards the in silico identification of class II restricted T-cell epitopes:a partial least squares iterative self-consistent algorithm for affinity prediction. Bioinformatics, 19 (17), pp. 2263-2270.

Lopes, A. Ross, Jaye, Assan, Dorrell, Lucy, Sabally, Sehu, Alabi, Abraham, Jones, Nicola A., Flower, Darren R., de Groot, Anne, Newton, Phillipa, Lascar, R. Monica, Williams, Ian, Whittle, Hilton, Bertoletti, Antonio, Borrow, Persephone and Maini, Mala K. (2003). Greater CD8+ TCR heterogeneity and functional flexibility in HIV-2 compared to HIV-1 infection. Journal of Immunology, 171 (1), pp. 307-316.

Taylor, Paul D., Attwood, Teresa K. and Flower, Darren R. (2003). BPROMPT:a consensus server for membrane protein prediction. Nucleic Acids Research, 31 (13), pp. 3698-3700.

McSparron, Helen, Blythe, Martin J., Zygouri, Christianna, Doytchinova, Irini A. and Flower, Darren R. (2003). JenPep : a novel computational information resource for immunobiology and vaccinology. Journal of Chemical Information and Modeling, 43 (4), pp. 1276-1287.

Guan, Pingping, Doytchinova, Irini A., Zygouri, Christianna and Flower, Darren R. (2003). MHCPred : a server for quantitative prediction of peptide-MHC binding. Nucleic Acids Research, 31 (13), pp. 3621-3624.

Guan, Pingping, Doytchinova, Irini A. and Flower, Darren R. (2003). A comparative molecular similarity indices (CoMSIA) study of peptide binding to the HLA-A3 superfamily. Bioorganic and Medicinal Chemistry Letters, 11 (10), pp. 2307-2311.

Doytchinova, Irini and Flower, Darren (2003). The HLA-A2-supermotif:a QSAR definition. Organic and Biomolecular Chemistry, 1 (15), pp. 2648-2654.

Book Section

Mumtaz, Shahzad, Nabney, Ian and Flower, Darren (2012). Novel visualization methods for protein data. IN: 2012 IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology (CIBCB). IEEE.

This list was generated on Sun Feb 17 00:51:32 2019 GMT.