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Article

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.

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.

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.

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.

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 ,

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),

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.

Bayry, Jagadeesh; Tchilian, Elma Z.; Davies, Matthew N.; Forbes, Emily K.; Draper, Simon J.; Kaveri, Srini V.; Hill, Adrian V.S.; Kazatchkine, Michel D.; Beverley, Peter C.L.; Flower, Darren R and Tough, David F. (2008). In silico identified CCR4 antagonists target regulatory T cells and exert adjuvant activity in vaccination. Proceedings of the National Academy of Sciences, 105 (29), pp. 10221-10226.

Vivona, Sandro; Gardy, Jennifer L.; Ramachandran, Srinivasan; Brinkman, Fiona S.L.; Raghava, G.P.S.; Flower, Darren R and Filippini, Francesco (2008). Computer-aided biotechnology:from immuno-informatics to reverse vaccinology. Trends in Biotechnology, 26 (4), pp. 190-200.

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

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

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

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. 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.

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

Davies, Matthew N; Gloriam, David E; Secker, Andrew; Freitas, Alex A; Timmis, Jon and Flower, Darren R Present perspectives on the automated classification of the G-protein coupled receptors (GPCRs) at the protein sequence level. Current Topics in Medicinal Chemistry, 11 (15), pp. 1994-2009.

Todman, Sarah J.; Halling-Brown, Mark D.; Davies, Matthew N.; Flower, Darren R; Kayikci, Melis and Moss, David S. Toward the atomistic simulation of T cell epitopes automated construction of MHC:peptide structures for free energy calculations. Journal of Molecular Graphics and Modelling, 26 (6), pp. 957-961.

Book Section

Hattotuwagama, Channa K.; Doytchinova, Irini A. and Flower, Darren R (2007). Toward the prediction of class I and II mouse major histocompatibility complex-peptide-binding affinity:in silico bioinformatic step-by-step guide using quantitative structure-activity relationships. IN: Immunoinformatics. Flowers, Darren R. (ed.) Methods in molecular biology™ . Totowa, NJ (US): Humana Press.