Dr David Leader
- Honorary Senior Reseach Fellow (School of Molecular Biosciences)
email:
David.Leader@glasgow.ac.uk
Room 919, Boyd Orr Building, Glasgow, G12 8QQ
https://orcid.org/0000-0002-0635-1843Publications
2024
Leader, D. P. , Naseem, M. T. and Halberg, K. V. (2024) BeetleAtlas: an ontogenetic and tissue-specific transcriptomic atlas of the red flour beetle Tribolium castaneum. Journal of Molecular Biology, 436(17), 168520. (doi: 10.1016/j.jmb.2024.168520)
Leader, D. P. (2024) E. James Milner-White (1945–2023). Proteins: Structure Function and Bioinformatics, 92(6), pp. 691-692. (doi: 10.1002/prot.26664) (PMID:38197126)
Leader, D. P. and Coggins, J. R. (2024) E. James Milner-White, 1945–2023. Biochemist, 46(1), pp. 34-35. (doi: 10.1042/bio_2024_108)
2023
Naseem, M. T., Beaven, R., Koyama, T., Naz, S., Su, S.-y., Leader, D. P. , A. Klaerke, D., Calloe, K., Denholm, B. and Halberg, K. V. (2023) NHA1 is a cation/proton antiporter essential for the water-conserving functions of the rectal complex in Tribolium castaneum. Proceedings of the National Academy of Sciences of the United States of America, 120(13), e221708412. (doi: 10.1073/pnas.2217084120) (PMID:36943876)
Leader, D. P. and Milner-White, E. J. (2023) The conserved crown bridge loop at the catalytic centre of enzymes of the haloacid dehalogenase superfamily. Current Research in Structural Biology, 6, 100105. (doi: 10.1016/j.crstbi.2023.100105) (PMID:37786806) (PMCID:PMC10541634)
2022
Krause, S. A. , Overend, G. , Dow, J. A.T. and Leader, D. P. (2022) FlyAtlas 2 in 2022: enhancements to the Drosophila melanogaster expression atlas. Nucleic Acids Research, 50(D1), D1010-D1015. (doi: 10.1093/nar/gkab971) (PMID:34718735) (PMCID:PMC8728208)
2021
Leader, D.P. and Milner-White, E.J. (2021) The β-link motif in protein architecture. Acta Crystallographica Section D: Structural Biology, 77(8), pp. 1040-1049. (doi: 10.1107/S2059798321006768)
Leader, D. P. and Milner-White, J. E. (2021) Identification and characterization of two classes of G1 β-bulge. Acta Crystallographica. Section D: Structural Biology, 77(2), (doi: 10.1107/S2059798320015533) (PMID:33559610) (PMCID:PMC7869896)
2017
Leader, D. P. , Krause, S. A. , Pandit, A. , Davies, S. A. and Dow, J. A.T. (2017) FlyAtlas 2: a new version of the Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data. Nucleic Acids Research, 46(D1), D809-D815. (doi: 10.1093/nar/gkx976) (PMID:29069479) (PMCID:PMC5753349)
2015
Leader, D. P. and Milner-White, J. (2015) Bridging of partially negative atoms by hydrogen bonds from main-chain NH groups in proteins: the crown motif. Proteins: Structure Function and Bioinformatics, 83(11), pp. 2067-2076. (doi: 10.1002/prot.24923) (PMID:26358948)
2014
Afzal, A. M., Al-Shubailly, F., Leader, D. P. and Milner-White, E. J. (2014) Bridging of anions by hydrogen bonds in nest motifs and its significance for Schellman loops and other larger motifs within proteins. Proteins: Structure Function and Bioinformatics, 82(11), pp. 3023-3031. (doi: 10.1002/prot.24663)
Hayward, S., Leader, D.P. , Al-Shubailly, F. and Milner-White, E.J. (2014) Rings and ribbons in protein structures: characterization using helical parameters and Ramachandran plots for repeating dipeptides. Proteins: Structure Function and Bioinformatics, 82(2), pp. 230-239. (doi: 10.1002/prot.24357)
2013
Robinson, S.W., Herzyk, P. , Dow, J.A.T. and Leader, D.P. (2013) FlyAtlas: database of gene expression in the tissues of drosophila melanogaster. Nucleic Acids Research, 41(D1), D744-D750. (doi: 10.1093/nar/gks1141) (PMID:23203866) (PMCID:PMC3531048)
2012
Leader, D.P. and Milner-White, E.J. (2012) Structure motivator: a tool for exploring small three-dimensional elements in proteins. BMC Structural Biology, 12(1), p. 26. (doi: 10.1186/1472-6807-12-26)
2011
Leader, D.P. , Burgess, K., Creek, D. and Barrett, M.P. (2011) Pathos: a web facility that uses metabolic maps to display experimental changes in metabolites identified by mass spectrometry. Rapid Communications in Mass Spectrometry, 25(22), pp. 3422-3426. (doi: 10.1002/rcm.5245)
Leader, D.P. and Milner-White, E.J. (2011) The structure of the ends of α-helices in globular proteins: Effect of additional hydrogen bonds and implications for helix formation. Proteins: Structure Function and Bioinformatics, 79(3), pp. 1010-1019. (doi: 10.1002/prot.22942)
2009
Leader, D.P. and Milner-White, E.J. (2009) Motivated proteins: a web application for studying small three-dimensional protein motifs. BMC Bioinformatics, 10(60), (doi: 10.1186/1471-2105-10-60)
Torrance, G.M., Leader, D.P., Gilbert, D.R. and Milner-White, E.J. (2009) A novel main chain motif in proteins bridged by cationic groups: the niche. Journal of Molecular Biology, 385(4), pp. 1076-1086. (doi: 10.1016/j.jmb.2008.11.007)
2005
Jakubowska, J., Hunt, E., Chalmers, M. , Leader, D. , McBride, M. and Dominiczak, A. F. (2005) System level visualization of eQTLs and pQTLs. BMC Bioinformatics, 6(Sup 3), P15. (doi: 10.1186/1471-2105-6-S3-P15)
2004
Hunt, E., Hanlon, N., Leader, D.P., Bryce, H. and Dominiczak, A.F. (2004) The visual language of synteny. OMICS: A Journal of Integrative Biology, 8(4), pp. 289-305. (doi: 10.1089/omi.2004.8.289.)
Leader, D.P. (2004) BugView: a browser for comparing genomes. Bioinformatics, 20, pp. 129-130. (doi: 10.1093/bioinformatics/btg383)
Leader, D.P. (2004) Genome browsing 'for the rest of us' - software and resources for visualizing genomic data. Biochemist, 26(4), pp. 7-11.
2000
Brown, N.G., Morrice, D.N., Beaud, G., Hardie, G. and Leader, D.P. (2000) Identification of sites phosphorylated by the vaccinia virus B1R kinase in viral protein H5R. BMC Biochemistry, 1(2),
Articles
Leader, D. P. , Naseem, M. T. and Halberg, K. V. (2024) BeetleAtlas: an ontogenetic and tissue-specific transcriptomic atlas of the red flour beetle Tribolium castaneum. Journal of Molecular Biology, 436(17), 168520. (doi: 10.1016/j.jmb.2024.168520)
Leader, D. P. (2024) E. James Milner-White (1945–2023). Proteins: Structure Function and Bioinformatics, 92(6), pp. 691-692. (doi: 10.1002/prot.26664) (PMID:38197126)
Leader, D. P. and Coggins, J. R. (2024) E. James Milner-White, 1945–2023. Biochemist, 46(1), pp. 34-35. (doi: 10.1042/bio_2024_108)
Naseem, M. T., Beaven, R., Koyama, T., Naz, S., Su, S.-y., Leader, D. P. , A. Klaerke, D., Calloe, K., Denholm, B. and Halberg, K. V. (2023) NHA1 is a cation/proton antiporter essential for the water-conserving functions of the rectal complex in Tribolium castaneum. Proceedings of the National Academy of Sciences of the United States of America, 120(13), e221708412. (doi: 10.1073/pnas.2217084120) (PMID:36943876)
Leader, D. P. and Milner-White, E. J. (2023) The conserved crown bridge loop at the catalytic centre of enzymes of the haloacid dehalogenase superfamily. Current Research in Structural Biology, 6, 100105. (doi: 10.1016/j.crstbi.2023.100105) (PMID:37786806) (PMCID:PMC10541634)
Krause, S. A. , Overend, G. , Dow, J. A.T. and Leader, D. P. (2022) FlyAtlas 2 in 2022: enhancements to the Drosophila melanogaster expression atlas. Nucleic Acids Research, 50(D1), D1010-D1015. (doi: 10.1093/nar/gkab971) (PMID:34718735) (PMCID:PMC8728208)
Leader, D.P. and Milner-White, E.J. (2021) The β-link motif in protein architecture. Acta Crystallographica Section D: Structural Biology, 77(8), pp. 1040-1049. (doi: 10.1107/S2059798321006768)
Leader, D. P. and Milner-White, J. E. (2021) Identification and characterization of two classes of G1 β-bulge. Acta Crystallographica. Section D: Structural Biology, 77(2), (doi: 10.1107/S2059798320015533) (PMID:33559610) (PMCID:PMC7869896)
Leader, D. P. , Krause, S. A. , Pandit, A. , Davies, S. A. and Dow, J. A.T. (2017) FlyAtlas 2: a new version of the Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data. Nucleic Acids Research, 46(D1), D809-D815. (doi: 10.1093/nar/gkx976) (PMID:29069479) (PMCID:PMC5753349)
Leader, D. P. and Milner-White, J. (2015) Bridging of partially negative atoms by hydrogen bonds from main-chain NH groups in proteins: the crown motif. Proteins: Structure Function and Bioinformatics, 83(11), pp. 2067-2076. (doi: 10.1002/prot.24923) (PMID:26358948)
Afzal, A. M., Al-Shubailly, F., Leader, D. P. and Milner-White, E. J. (2014) Bridging of anions by hydrogen bonds in nest motifs and its significance for Schellman loops and other larger motifs within proteins. Proteins: Structure Function and Bioinformatics, 82(11), pp. 3023-3031. (doi: 10.1002/prot.24663)
Hayward, S., Leader, D.P. , Al-Shubailly, F. and Milner-White, E.J. (2014) Rings and ribbons in protein structures: characterization using helical parameters and Ramachandran plots for repeating dipeptides. Proteins: Structure Function and Bioinformatics, 82(2), pp. 230-239. (doi: 10.1002/prot.24357)
Robinson, S.W., Herzyk, P. , Dow, J.A.T. and Leader, D.P. (2013) FlyAtlas: database of gene expression in the tissues of drosophila melanogaster. Nucleic Acids Research, 41(D1), D744-D750. (doi: 10.1093/nar/gks1141) (PMID:23203866) (PMCID:PMC3531048)
Leader, D.P. and Milner-White, E.J. (2012) Structure motivator: a tool for exploring small three-dimensional elements in proteins. BMC Structural Biology, 12(1), p. 26. (doi: 10.1186/1472-6807-12-26)
Leader, D.P. , Burgess, K., Creek, D. and Barrett, M.P. (2011) Pathos: a web facility that uses metabolic maps to display experimental changes in metabolites identified by mass spectrometry. Rapid Communications in Mass Spectrometry, 25(22), pp. 3422-3426. (doi: 10.1002/rcm.5245)
Leader, D.P. and Milner-White, E.J. (2011) The structure of the ends of α-helices in globular proteins: Effect of additional hydrogen bonds and implications for helix formation. Proteins: Structure Function and Bioinformatics, 79(3), pp. 1010-1019. (doi: 10.1002/prot.22942)
Leader, D.P. and Milner-White, E.J. (2009) Motivated proteins: a web application for studying small three-dimensional protein motifs. BMC Bioinformatics, 10(60), (doi: 10.1186/1471-2105-10-60)
Torrance, G.M., Leader, D.P., Gilbert, D.R. and Milner-White, E.J. (2009) A novel main chain motif in proteins bridged by cationic groups: the niche. Journal of Molecular Biology, 385(4), pp. 1076-1086. (doi: 10.1016/j.jmb.2008.11.007)
Jakubowska, J., Hunt, E., Chalmers, M. , Leader, D. , McBride, M. and Dominiczak, A. F. (2005) System level visualization of eQTLs and pQTLs. BMC Bioinformatics, 6(Sup 3), P15. (doi: 10.1186/1471-2105-6-S3-P15)
Hunt, E., Hanlon, N., Leader, D.P., Bryce, H. and Dominiczak, A.F. (2004) The visual language of synteny. OMICS: A Journal of Integrative Biology, 8(4), pp. 289-305. (doi: 10.1089/omi.2004.8.289.)
Leader, D.P. (2004) BugView: a browser for comparing genomes. Bioinformatics, 20, pp. 129-130. (doi: 10.1093/bioinformatics/btg383)
Leader, D.P. (2004) Genome browsing 'for the rest of us' - software and resources for visualizing genomic data. Biochemist, 26(4), pp. 7-11.
Brown, N.G., Morrice, D.N., Beaud, G., Hardie, G. and Leader, D.P. (2000) Identification of sites phosphorylated by the vaccinia virus B1R kinase in viral protein H5R. BMC Biochemistry, 1(2),