Search results for author Frank Wright

» Frank's Home Page

Result count: 55

To appear:

Category: "Refereed journal"

Bayer, M., Milne, I., Stephen, G., Shaw, P., Cardle, L., Wright, F. and Marshall, D. Comparative visualization of genetic and physical maps with Strudel. Bioinformatics.


Category: "Refereed journal"

MacKenzie, K., Marshall, J., Wright, F., Holden, N. and Gunn, G. J. (2022). Phylogeny and potential virulence of cryptic clade Escherichia coli species complex isolates derived from an arable field trial. Current Research in Mircrobial Sciences. Elsevier.

McLean, K., Palarea Albaladejo, J., Currie, C.G., Imrie, L.H.J., Manson, E.D.T., Fraser-Pitt, D., Wright, F., Alexander, C.J., Pollock, K.G.J., Allison, L.J., Hanson, M.F. and Smith, D.G.E. (2018). Rapid and robust analytical protocol for E. coli STEC bacteria subspecies differentiation using whole cell MALDI mass spectrometry. Talanta 182(2018), 164-170. Elsevier.

Palarea Albaladejo, J., McLean, K., Wright, F. and Smith, D.G.E. (2018). MALDIrppa: quality control and robust analysis for mass spectrometry data. Bioinformatics 34(3), 522-523. Oxford University Press, Oxford, UK.

Chen, Y., Nishii, K., Spada, A., Wang, C., Sakakibara, H., Kojima, M., Wright, F., MacKenzie, K. and Moeller, M. (2017). Cytokinin biosynthesis ISOPENTENYLTRANSFERASE genes are differentially expressed during phyllomorph development in the acualescent Streptocarpus rexii (Gesneriaceae). South African Journal of Botany 109, 96-111. Elsevier.

Lazarova, S., Brown, D.J.F., Oliveira, CMG., Fenton, B., MacKenzie, K., Wright, F., Malloch, G. and Neilson, R. (2016). Diversity of endosymbiont bacteria associated with a non-filarial nematode group. Nematology 18(5), 615-623.

Schwerdt, J.G., MacKenzie, K., Wright, F., Oehme, D., Wagner, J.M., Harvey, A.J., Shirley, N.J., Burton, R.A., Schreiber, M., Halpin, C., Zimmer, J., Marshall, D.F., Waugh, R. and Fincher, G.B. (2015). Evolutionary dynamics of the cellulose synthase gene superfamily in grasses. Plant Physiology 168(3), 968-983.

Holden, N., Wright, F., MacKenzie, K., Marshall, J., Mitchell, S., Mahajan, A., Wheatley, R. and Daniell, T. (2014). Prevalence and diversity of Escherichia coli isolated from a barley trial supplemented with bulky organic soil amendments: green compost and bovine slurry. Letters in Applied Microbiology 58, 205-212.

Schreiber, M., Wright, F., MacKenzie, K., Schwerdt, J.G., Burton, R.A., Fincher, G.B., Marshall, D., Waugh, R. and Halpin, C. (2014). The barley genome sequence assembly reveals three additional members of the CslF(1,3;1,4)-β-glucan synthase gene family. PLoS ONE 9(3), e90888.

Phillips, D., Wnetrzak, J., Nibau, C., Barakate, A., Ramsay, L., Wright, F., Higgins, J.D., Perry, R.M. and Jenkins, G. (2013). Quantitative high resolution mapping of HvMLH3 foci in barley pachytene nuclei reveals a strong distal bias and weak interference. Journal of Experimental Biology 64(8), 2139-2154.

Jupe, F., Pritchard, L., Etherington, G.J., MacKenzie, K., Cock, P.J.A., Wright, F., Sharma, S.K., Bolser, D., Bryan, G.J., Jones, J.D.G. and Hein, I. (2012). Identification and localisation of the NB-LRR gene family within the potato genome. BMC Genomics 13(75).

Wheelhouse, N.M., Sait, M., Aitchison, K., Livingstone, M., Wright, F., McLean, K., Inglis, N.F., Smith, D.G.E. and Longbottom, D. (2012). Processing of Chlamydia abortus polymorphic membrane protein 18D during the chlamydial developmental cycle. PLoS ONE 7(11).

Sait, M., Clark, E.M., Wheelhouse, N., Spalding, L., Livingstone, M., Sachseh, K., Markey, B.K., Magnino, S., Siarkou, V.I., Vretou, E., Caro, M.R., Yaga, R., Lainson, F.A., Smith, D.G.E., Wright, F. and Longbottom, D. (2011). Genetic variability of Chlamydophila abortus strains assessed by PCR-RFLP analysis of polymorphic membrane protein-encoding genes. Veterinary Microbiology 151(3-4), 284-290.

Bayer, M., Milne, I., Gordon, S., Shaw, P., Cardle, L., Wright, F. and Marshall, D. (2011). Comparative visualization of genetic and physical maps with Strudel. Bioinformatics 27(9), 1307-1308.

Milne, I., Bayer, M.M., Cardle, L., Shaw, P., Stephen, G., Wright, F. and Marshall, D.F. (2010). Tablet - next generation sequence assembly visualization. Bioinformatics 26, 401-402.

Ballingall, K.T., Rocchi, M.S., McKeever, D.J. and Wright, F. (2010). Trans-species polymorphism and selection in the MHC class II DRA genes of domestic sheep. PLoS ONE 5, e11402.

Wheelhouse, N., Katzer, F., Wright, F. and Longbottom, D. (2010). Novel Chlamydia-like organisms as cause of bovine abortions, UK. Emerging Infectious Diseases 16(8), 1323-1324.

Milne, I., Lindner, D., Bayer, M.M., Husmeier, D., McGuire, G., Marshall, D.F. and Wright, F. (2009). TOPALi v2: a rich graphical interface for evolutionary analyses of multiple alignments on HPC clusters and multi-core desktops. Bioinformatics 25(1), 126-127.

Ducreux, L.J.M., Morris, W.L., Prosser, I.M., Morris, J.A., Beale, M.H., Wright, F., Shepherd, T., Bryan, G.J., Hedley, P.E. and Taylor, M.A. (2008). Expression profiling of potato germplasm differentiated in quality traits leads to the identification of candidate flavour and texture genes. Journal of Experimental Biology 59, 4219-4231.

Husmeier, D., Wright, F. and Milne, I. (2005). Detecting interspecific recombination with a pruned probabilistic divergence measure. Bioinformatics 21, 1797-1806.

Liu, Z., Bos, J.I.B., Armstrong, M., Whisson, S.C., da Cunha, L., Torto-Alalibo, T., Win, J., Avrova, A.V., Wright, F., Birch, P.R.J. and Kamoun, S. (2005). Patterns of diversifying selection in the phytotoxin-like scr74 gene family of Phytophthora infestans. Molecular Biology and Evolution 22, 659-672.

Oliviera, C.M.G., Hubschen, J., Brown, D.J.F., Ferraz, L.C.C.B., Wright, F. and Neilson, R. (2004). Phylogenetic relationships among Xiphinema and Xiphidorus nematode species from Brazil inferred from 18S rDNA sequences. Journal of Nematology 36, 153-159.

Milne, I., Wright, F., Rowe, G., Marshall, D., Husmeier, D. and McGuire, G. (2004). TOPALi: Software for automatic identification of recombinant sequences within DNA multiple alignments. Bioinformatics 20, 1806-1807.

Husmeier, D. and Wright, F. (2002). A Bayesian approach to discriminate between alternative DNA sequence segmentations. Bioinformatics 18, 226-234.

Stevenson, K., Hughes, V.M., De Juan, L., Inglis, N.F., Wright, F. and Sharp, J.M. (2002). Molecular characterization of pigmented and nonpigmented isolates of Mycobacterium avium subsp. paratuberculosis. Journal of Clinical Microbiology 40, 1798-1804.

Husmeier, D. and Wright, F. (2001). Detection of recombination in DNA multiple alignments with hidden Markov models. Journal of Computational Biology 8, 401-427.

Taylor, M.A., Ross, H.A., McRae, D., Wright, F., Viola, R. and Davies, H.V. (2001). Copy-DNA cloning and characterisation of a potato alpha-glucosidase: expression in Escherichia coli and effects of down-regulation in transgenic potato. Planta 213, 258-264.

Husmeier, D. and Wright, F. (2001). Probabilistic divergence measures for detecting interspecies recombination. Bioinformatics 17, S123-S131.

Taylor, M.A., Ross, H.R., George, L.A., McRae, D., Stewart, D., Roberts, I.M., Duncan, J., Wright, F. and Davies, H.V. (2000). A potato alpha-glucosidase gene in codes glycoprotein processing alpha-glucosidase II-like activity. Demonstration of enzyme activity and effects of down-regulation in transgenic plants. The Plant Journal 24, 305-316.

McGuire, G., Wright, F. and Prentice, M.J. (2000). A bayesian model for detecting past recombination events in DNA multiple alignments. Journal of Computational Biology 7, 159-170.

Provan, J., Lawrence, P., Young, G., Wright, F., Bid, R., Paglia, G., Cattonaro, F., Morgante, M. and Powell, W. (1999). Analysis of the genus Zea (Poaceae) using polymorphic chloroplast simple sequence repeats. Plant Systematics and Evolution 218: 245-256, 218:245-256.

Horgan, G.W., Elston, D.A., Franklin, M.F., Glasbey, C.A., Hunter, E.A., Talbot, M., Kempton, R.A., McNicol, J.W. and Wright, F. (1999). Teaching statistics to biological research scientists. Journal of the Royal Statistical Society, Series A Series D,48, 393-400.

McGuire, G. and Wright, F. (1999). TOPAL 2.0: improved detecting of mosaic sequences within multiple alignments. Bioinformatics 16, 130-134.

McGuire, G., Prentice, M.J. and Wright, F. (1999). Improved error bounds for genetic distances from DNA sequences. Biometrics 55, 1064-1070.

Hopkins, R.J., Wright, F., Birch, A.N.E. and McKinlay, R.G. (1999). The decision to oviposit: a sequential analysis of the post-alighting behaviour of Delia floralis. Physiological Entomology 24, 41-50.

Kirby, J., Wright, F. and Flint, H.J. (1998). A cysteine desulphurase gene from the cellulolytic rumen anaerobe Ruminococcus flavefaciens. Biochimica et Biophysica Acta 1386, 233-237.

Fennell, S.R., Powell, W., Wright, F., Ramsay, G. and Waugh, R. (1998). Phylogenetic relationships between Vicia faba (Fabaceae) and related species inferred from chloroplast trnL sequences. Plant Systematics and Evolution 212, 247-259.

McGuire, G. and Wright, F. (1998). TOPAL: recombination detection in DNA and protein sequences. Bioinformatics 14, 219-220.

Harrier, L.A., Wright, F. and Hooker, J.E. (1998). Isolation of the 3-phosphoglycerate kinase gene of the arbuscular mycorrhizal fungus Glomus mosseal (Nicol. & Gerd.) Gerdemann & Trappe. Current Genetics 34, 386-392.

McGuire, G., Wright, F. and Prentice, M.J. (1997). A graphical method for detecting recombination in phylogenetic data sets. Molecular Biology and Evolution 14, 1125-1131.

Hopkins, R.J., Wright, F., McKinlay, R.G. and Birch, A.N.E. (1996). Analysis of sequential behaviour patterns: the oviposition decision of the turnip root fly, Delia floralis. Entomologia Experimentalis et Applicata 80, 93-96.

Wood, A.R., Lainson, F.A., Wright, F., Baird, G.D. and Donachie, W. (1995). A native plasmid of Pasteurella haemolytica serotype A1: DNA sequence analysis and investigation of its potential as a vector. Research in Veterinary Science 58, 163-168.

Wright, H., Redmond, J., Wright, F. and Ballingall, K.T. (1995). The nucleotide sequence of the sheep MHC class II DNA gene. Immunogenetics 41, 131-133.

McInnis, C.J., Logan, M., Haig, D. and Wright, F. (1994). Cloning of a cDNA encoding ovine interleukin-3. Gene 139, 289-290.

Augustin, G., Wright, F. and Flint, H.J. (1994). Genetic diversity and phylogenetic relationships among strains of Prevotella (Bacteroides) ruminicola from the rumen. International Journal of Systematic Bacteriology 44, 246-255.

Taylor, M.A., Wright, F. and Davies, H.V. (1994). Characterisation of the cDNA clones of two B-tubulin genes and their expression in the potato plant (S. tuberosum L.). Plant Molecular Biology 26, 1013-1018.

Glasbey, C.A. and Wright, F. (1994). An algorithm for unwarping multitrack electrophoretic gels. Electrophoresis 15, 143-148.

Low, J.C., Donachie, W., Wright, F. and McLauchlan, J. (1993). Serotyping and distribution of Listeria isolates from cases of ovine listeriosis. Veterinary Record 133, 165-166.

Baxter, F., Wright, F., Chalmers, R.H., Low, J.C. and Donachie, W. (1993). Characterisation by multilocus enzyme electrophoresis of Listeria monocytogenes isolates involved in ovine listeriosis outbreaks in Scotland during 1989-91. Applied and Environmental Microbiology 59, 3126-3129.

Lally, N.C., Baird, D.G., McQuay, S.J., Wright, F. and Oliver, J.J. (1992). A 2359bp DNA fragment from Cryptosporidium parvum encoding a repetitive oocyst protein. Molecular and Biochemical Parasitology 56, 69-78.

Wright, F. and Bibb, M.J. (1992). Codon usage in the G + C rich Streptomyces genome. Gene 113, 55-65.

Wright, F. (1990). The effective number of codons used in a gene. Gene 87, 23-29.

Shields, D.C., Sharp, P.M., Higgins, D.G. and Wright, F. (1988). Silent sites in Drosophila genes are not neutral: Evidence of selection among synonymous codons. Molecular Biology and Evolution 5, 704-716.

Sharp, P.M., Cowe, E., Higgins, D.G., Shields, D.C., Wolfe, K.H. and Wright, F. (1988). Codon usage patterns in E. coli, B. subtilis, S. cerevisiae, S. pombe, D. melanogaster, and H. Sapiens. A review of the considerable within-species diversity. Nucleic Acids Research 16, 8207-8211.

Category: "Book Chapter"

Husmeier, D. and Wright, F. (2005). Detecting recombination in DNA sequence alignments. In "Probabilistic Modeling in Bioinformatics and Medical Informatics", 147-190. Eds. Husmeier, D., Dybowski, R. & Roberts, S.. Springer Verlag.

Unless explicitly stated otherwise, all material is copyright © Biomathematics and Statistics Scotland. Biomathematics and Statistics Scotland (BioSS) is formally part of The James Hutton Institute (JHI), a registered Scottish charity No. SC041796 and a company limited by guarantee No. SC374831. Registered Office: JHI, Invergowrie, Dundee, DD2 5DA, Scotland