All Stories

  1. How Genetic Variations in ACE2 Could Affect COVID-19 Risk and Spread

    Article • PLoS Computational Biology, March 2022, PLOS

    Professor Geoff Barton, Dr Stuart MacGowan

  2. Ankyrin repeats in context with human population variation

    Article • PLoS Computational Biology, August 2021, PLOS

    Professor Geoff Barton, Dr Stuart MacGowan

  3. Detection and mitigation of spurious antisense expression with RoSA

    Article • F1000Research, June 2019, Faculty of 1000, Ltd.

    Professor Geoff Barton, Dr Nicholas Schurch

  4. Relative Abundance of Transcripts (RATs): Identifying differential isoform abundance from RNA-seq

    Article • F1000Research, February 2019, Faculty of 1000, Ltd.

    Dr Nicholas Schurch, Professor Geoff Barton, Dr Kimon Froussios

  5. Detection and Mitigation of Spurious Antisense RNA-seq Reads with RoSA

    Article • September 2018, Cold Spring Harbor Laboratory Press

    Dr Nicholas Schurch, Professor Geoff Barton, Dr Kimon Froussios

  6. Proteus: an R package for downstream analysis of MaxQuant output

    Article • September 2018, Cold Spring Harbor Laboratory Press

    Professor Geoff Barton

  7. JABAWS 2.2 distributed web services for Bioinformatics: protein disorder, conservation and RNA secondary structure

    Article • Bioinformatics, January 2018, Oxford University Press (OUP)

    Professor Geoff Barton

  8. Identifying differential isoform abundance with RATs: a universal tool and a warning

    Article • May 2017, Cold Spring Harbor Laboratory Press

    Dr Nicholas Schurch, Professor Geoff Barton, Dr Kimon Froussios

  9. Human Missense Variation is Constrained by Domain Structure and Highlights Functional and Pathogenic Residues

    Article • April 2017, Cold Spring Harbor Laboratory Press

    Professor Geoff Barton, Dr Stuart MacGowan

  10. A study of the structural properties of sites modified by the O-linked 6-N-acetylglucosamine transferase

    Article • March 2017, Cold Spring Harbor Laboratory Press

    Professor Geoff Barton

  11. How well do RNA-Seq differential gene expression tools perform in a eukaryote with a complex transcriptome?

    Article • December 2016, Cold Spring Harbor Laboratory Press

    Dr Nicholas Schurch, Professor Geoff Barton, Dr Kimon Froussios

  12. AlmostSignificant: Simplifying quality control of high-throughput sequencing data.

    Article • May 2016, Cold Spring Harbor Laboratory Press

    Professor Geoff Barton

  13. Statistical models for RNA-seq data derived from a two-condition 48-replicate experiment

    Article • Bioinformatics, July 2015, Oxford University Press (OUP)

    Dr Nicholas Schurch, Professor Geoff Barton

  14. Proteotoxic stress reprograms the chromatin landscape of SUMO modification

    Article • Science Signaling, July 2015, American Association for the Advancement of Science

    Professor Geoff Barton

  15. JPred4: a protein secondary structure prediction server

    Article • Nucleic Acids Research, April 2015, Oxford University Press (OUP)

    Professor Geoff Barton

  16. 14-3-3-Pred: improved methods to predict 14-3-3-binding phosphopeptides

    Article • Bioinformatics, March 2015, Oxford University Press (OUP)

    Professor Geoff Barton

  17. ElevatedO-GlcNAc Levels Activate Epigenetically Repressed Genes and Delay Mouse ESC Differentiation Without Affecting Naïve to Primed Cell Transition

    Article • Stem Cells, September 2014, Wiley

    Professor Geoff Barton

  18. Major transcriptome re-organisation and abrupt changes in signalling, cell cycle and chromatin regulation at neural differentiation in vivo

    Article • Development, July 2014, The Company of Biologists

    Dr Nicholas Schurch, Professor Geoff Barton

  19. Filaggrin-stratified transcriptomic analysis of pediatric skin identifies mechanistic pathways in patients with atopic dermatitis

    Article • Journal of Allergy and Clinical Immunology, July 2014, Elsevier

    Dr Nicholas Schurch, Professor Geoff Barton

  20. Improved Annotation of 3′ Untranslated Regions and Complex Loci by Combination of Strand-Specific Direct RNA Sequencing, RNA-Seq and ESTs

    Article • PLoS ONE, April 2014, PLOS

    Dr Nicholas Schurch, Professor Geoff Barton

  21. Quantitative proteomics in resected renal cancer tissue for biomarker discovery and profiling

    Article • British Journal of Cancer, February 2014, Springer Science + Business Media

    Professor Geoff Barton

  22. Tmem79/Matt is the matted mouse gene and is a predisposing gene for atopic dermatitis in human subjects

    Article • Journal of Allergy and Clinical Immunology, November 2013, Elsevier

    Professor Geoff Barton, Frank Sullivan

  23. Transcription Termination and Chimeric RNA Formation Controlled by Arabidopsis thaliana FPA

    Article • PLoS Genetics, October 2013, PLOS

    Professor Geoff Barton

  24. The RNA-binding protein FPA regulates flg22-triggered defense responses and transcription factor activity by alternative polyadenylation

    Article • Scientific Reports, October 2013, Springer Science + Business Media

    Professor Geoff Barton

  25. PGE2 Induces Macrophage IL-10 Production and a Regulatory-like Phenotype via a Protein Kinase A-SIK-CRTC3 Pathway

    Article • The Journal of Immunology, December 2012, The American Association of Immunologists

    Professor Geoff Barton

  26. Haploinsufficiency for AAGAB causes clinically heterogeneous forms of punctate palmoplantar keratoderma

    Article • Nature Genetics, October 2012, Springer Science + Business Media

    Professor Geoff Barton

  27. The kinomes of apicomplexan parasites

    Article • Microbes and Infection, August 2012, Elsevier

    Professor Geoff Barton

  28. Direct sequencing of Arabidopsis thaliana RNA reveals patterns of cleavage and polyadenylation

    Article • Nature Structural & Molecular Biology, July 2012, Springer Science + Business Media

    Professor Geoff Barton

  29. Live imaging of nascent RNA dynamics reveals distinct types of transcriptional pulse regulation

    Article • Proceedings of the National Academy of Sciences, April 2012, Proceedings of the National Academy of Sciences

    Professor Geoff Barton

  30. PTEN Protein Phosphatase Activity Correlates with Control of Gene Expression and Invasion, a Tumor-Suppressing Phenotype, But Not with AKT Activity

    Article • Science Signaling, February 2012, American Association for the Advancement of Science

    Dr Nicholas Schurch, Professor Geoff Barton

  31. Human box C/D snoRNA processing conservation across multiple cell types

    Article • Nucleic Acids Research, December 2011, Oxford University Press (OUP)

    Professor Geoff Barton

  32. A Role for Snf2-Related Nucleosome-Spacing Enzymes in Genome-Wide Nucleosome Organization

    Article • Science, September 2011, American Association for the Advancement of Science

    Professor Geoff Barton

  33. A Quantitative Spatial Proteomics Analysis of Proteome Turnover in Human Cells

    Article • Molecular & Cellular Proteomics, September 2011, American Society for Biochemistry & Molecular Biology (ASBMB)

    Professor Geoff Barton

  34. Computational approaches to selecting and optimising targets for structural biology

    Article • Methods, September 2011, Elsevier

    Professor Geoff Barton

  35. NoD: a Nucleolar localization sequence detector for eukaryotic and viral proteins

    Article • BMC Bioinformatics, August 2011, Springer Science + Business Media

    Professor Geoff Barton

  36. Java bioinformatics analysis web services for multiple sequence alignment--JABAWS:MSA

    Article • Bioinformatics, May 2011, Oxford University Press (OUP)

    Professor Geoff Barton

  37. A Dictyostelium SH2 adaptor protein required for correct DIF-1 signaling and pattern formation

    Article • Developmental Biology, May 2011, Elsevier

    Professor Geoff Barton

  38. The SWI/SNF complex acts to constrain distribution of the centromeric histone variant Cse4

    Article • The EMBO Journal, April 2011, Springer Science + Business Media

    Professor Corey Nislow, Professor Geoff Barton

  39. PIMS sequencing extension: a laboratory information management system for DNA sequencing facilities

    Article • BMC Research Notes, March 2011, Springer Science + Business Media

    Professor Geoff Barton

  40. PNAC: a protein nucleolar association classifier

    Article • BMC Genomics, January 2011, Springer Science + Business Media

    Professor Geoff Barton

  41. Identification of human miRNA precursors that resemble box C/D snoRNAs

    Article • Nucleic Acids Research, January 2011, Oxford University Press (OUP)

    Professor Geoff Barton

  42. XANNpred: Neural nets that predict the propensity of a protein to yield diffraction-quality crystals

    Article • Proteins Structure Function and Bioinformatics, January 2011, Wiley

    Professor Geoff Barton

  43. Global network analysis of drug tolerance, mode of action and virulence in methicillin-resistant S. aureus

    Article • BMC Systems Biology, January 2011, Springer Science + Business Media

    Professor Geoff Barton

  44. High-Resolution Whole-Genome Sequencing Reveals That Specific Chromatin Domains from Most Human Chromosomes Associate with Nucleoli

    Article • Molecular Biology of the Cell, November 2010, American Society for Cell Biology (ASCB)

    Professor Geoff Barton

  45. Characterization and prediction of protein nucleolar localization sequences

    Article • Nucleic Acids Research, July 2010, Oxford University Press (OUP)

    Professor Geoff Barton

  46. Regulation of the miR-212/132 locus by MSK1 and CREB in response to neurotrophins

    Article • Biochemical Journal, June 2010, Portland Press Ltd.

    Professor Geoff Barton

  47. Analysis of Human Small Nucleolar RNAs (snoRNA) and the Development of snoRNA Modulator of Gene Expression Vectors

    Article • Molecular Biology of the Cell, May 2010, American Society for Cell Biology (ASCB)

    Professor Geoff Barton

  48. The Scottish Structural Proteomics Facility: targets, methods and outputs

    Article • Journal of Structural and Functional Genomics, April 2010, Springer Science + Business Media

    Professor Geoff Barton

  49. Visualization of multiple alignments, phylogenies and gene family evolution

    Article • Nature Methods, March 2010, Nature

    Dr Christopher J Creevey, Professor Geoff Barton

  50. Filtering of deep sequencing data reveals the existence of abundant Dicer-dependent small RNAs derived from tRNAs

    Article • RNA, October 2009, Cold Spring Harbor Laboratory Press

    Professor Geoff Barton

  51. Human miRNA Precursors with Box H/ACA snoRNA Features

    Article • PLoS Computational Biology, September 2009, PLOS

    Professor Geoff Barton

  52. Distinct donor and acceptor specificities of Trypanosoma brucei oligosaccharyltransferases

    Article • The EMBO Journal, July 2009, Wiley

    Professor Geoff Barton

  53. System-Wide Changes to SUMO Modifications in Response to Heat Shock

    Article • Science Signaling, May 2009, American Association for the Advancement of Science

    Professor Geoff Barton

  54. Jalview Version 2--a multiple sequence alignment editor and analysis workbench

    Article • Bioinformatics, January 2009, Oxford University Press (OUP)

    Professor Geoff Barton

  55. Identification of a glycosylphosphatidylinositol anchor-modifying β1-3 N-acetylglucosaminyl transferase inTrypanosoma brucei

    Article • Molecular Microbiology, January 2009, Wiley

    Professor Geoff Barton

  56. Kinomer v. 1.0: a database of systematically classified eukaryotic protein kinases

    Article • Nucleic Acids Research, January 2009, Oxford University Press (OUP)

    Professor Geoff Barton

  57. PIPs: human protein-protein interaction prediction database

    Article • Nucleic Acids Research, January 2009, Oxford University Press (OUP)

    Professor Geoff Barton

  58. Continuous and discontinuous domains: An algorithm for the automatic generation of reliable protein domain definitions

    Article • Protein Science, December 2008, Wiley

    Professor Geoff Barton

  59. Mast cell tryptases: Examination of unusual characteristics by multiple sequence alignment and molecular modeling

    Article • Protein Science, December 2008, Wiley

    Professor Geoff Barton

  60. A new family of transcription factors

    Article • Development, September 2008, The Company of Biologists

    Professor Geoff Barton

  61. SCANPS: a web server for iterative protein sequence database searching by dynamic programing, with display in a hierarchical SCOP browser

    Article • Nucleic Acids Research, May 2008, Oxford University Press (OUP)

    Professor Geoff Barton

  62. TarO: a target optimisation system for structural biology

    Article • Nucleic Acids Research, May 2008, Oxford University Press (OUP)

    Professor Geoff Barton

  63. The Jpred 3 secondary structure prediction server

    Article • Nucleic Acids Research, May 2008, Oxford University Press (OUP)

    Professor Geoff Barton

  64. Genome Analysis of the Unicellular Green Alga Chlamydomonas reinhardtii Indicates an Ancient Evolutionary Origin for Key Pattern Recognition and Cell-Signaling Protein Families

    Article • Genetics, May 2008, Genetics Society of America

    Professor Geoff Barton

  65. ParCrys: a Parzen window density estimation approach to protein crystallization propensity prediction

    Article • Bioinformatics, February 2008, Oxford University Press (OUP)

    Professor Geoff Barton

  66. The contrasting properties of conservation and correlated phylogeny in protein functional residue prediction

    Article • BMC Bioinformatics, January 2008, Springer Science + Business Media

    Professor Geoff Barton

  67. Sequence alignment for molecular replacement

    Article • Acta Crystallographica Section D Biological Crystallography, December 2007, International Union of Crystallography

    Professor Geoff Barton

  68. Draft Genome of the Filarial Nematode Parasite Brugia malayi

    Article • Science, September 2007, American Association for the Advancement of Science

    Professor Geoff Barton

  69. A comparison of SCOP and CATH with respect to domain-domain interactions

    Article • Proteins Structure Function and Bioinformatics, July 2007, Wiley

    Professor Geoff Barton

  70. Probabilistic prediction and ranking of human protein-protein interactions

    Article • BMC Bioinformatics, July 2007, Springer Science + Business Media

    Professor Geoff Barton

  71. The Structure of Serine Palmitoyltransferase; Gateway to Sphingolipid Biosynthesis

    Article • Journal of Molecular Biology, July 2007, Elsevier

    Professor Geoff Barton

  72. Classification and functional annotation of eukaryotic protein kinases

    Article • Proteins Structure Function and Bioinformatics, June 2007, Wiley

    Professor Geoff Barton

  73. Purification, crystallization and data collection of methicillin-resistantStaphylococcus aureusSar2676, a pantothenate synthetase

    Article • Acta Crystallographica Section F Structural Biology and Crystallization Communications, May 2007, International Union of Crystallography

    Professor Geoff Barton

  74. Expression, purification, crystallization, data collection and preliminary biochemical characterization of methicillin-resistantStaphylococcus aureusSar2028, an aspartate/tyrosine/phenylalanine pyridoxal-5′-phosphate-dependent aminotransferase

    Article • Acta Crystallographica Section F Structural Biology and Crystallization Communications, April 2007, International Union of Crystallography

    Professor Geoff Barton

  75. Draft Genome Sequence of the Sexually Transmitted Pathogen Trichomonas vaginalis

    Article • Science, January 2007, American Association for the Advancement of Science

    Dr Sébastien Besteiro, Professor Geoff Barton

  76. SNAPPI-DB: a database and API of Structures, iNterfaces and Alignments for Protein-Protein Interactions

    Article • Nucleic Acids Research, January 2007, Oxford University Press (OUP)

    Professor Geoff Barton

  77. The complement of protein kinases of the microsporidium Encephalitozoon cuniculi in relation to those of Saccharomyces cerevisiae and Schizosaccharomyces pombe

    Article • BMC Genomics, January 2007, Springer Science + Business Media

    Professor Geoff Barton

  78. Biological Units and their Effect upon the Properties and Prediction of Protein–Protein Interactions

    Article • Journal of Molecular Biology, December 2006, Elsevier

    Professor Geoff Barton

  79. Emerging roles of pseudokinases

    Article • Trends in Cell Biology, September 2006, Elsevier

    Professor Geoff Barton

  80. MACSIMS : multiple alignment of complete sequences information management system

    Article • BMC Bioinformatics, June 2006, Springer Science + Business Media

    Professor Geoff Barton

  81. A normalised scale for structural genomics target ranking: The OB-Score

    Article • FEBS Letters, June 2006, Wiley

    Professor Geoff Barton

  82. Identification of multiple distinct Snf2 subfamilies with conserved structural motifs

    Article • Nucleic Acids Research, May 2006, Oxford University Press (OUP)

    Professor Geoff Barton

  83. Article • BMC Bioinformatics, January 2006, Springer Science + Business Media

    Professor Geoff Barton, Prof Gajendra PS Raghava

  84. The Jalview Java alignment editor

    Article • Bioinformatics, January 2004, Oxford University Press (OUP)

    Professor Geoff Barton

  85. E-MSD: an integrated data resource for bioinformatics

    Article • Nucleic Acids Research, January 2004, Oxford University Press (OUP)

    Professor Geoff Barton

  86. Article • BMC Bioinformatics, January 2004, Springer Science + Business Media

    Professor Geoff Barton

  87. Increased coverage obtained by combination of methods for protein sequence database searching

    Article • Bioinformatics, July 2003, Oxford University Press (OUP)

    Professor Geoff Barton

  88. Visual representation of database search results: the RHIMS Plot

    Article • Bioinformatics, May 2003, Oxford University Press (OUP)

    Professor Geoff Barton

  89. Article • BMC Bioinformatics, January 2003, Springer Science + Business Media

    Professor Geoff Barton, Prof Gajendra PS Raghava

  90. Estimation of P-values for global alignments of protein sequences

    Article • Bioinformatics, December 2001, Oxford University Press (OUP)

    Professor Geoff Barton

  91. Protein structural domains: Analysis of the 3Dee domains database

    Article • Proteins Structure Function and Bioinformatics, February 2001, Wiley

    Professor Geoff Barton

  92. 3Dee: a database of protein structural domains

    Article • Bioinformatics, February 2001, Oxford University Press (OUP)

    Professor Geoff Barton

  93. Protein structural domains: Analysis of the 3Dee domains database

    Article • Proteins Structure Function and Bioinformatics, January 2001, Wiley

    Professor Geoff Barton

  94. ProtEST: protein multiple sequence alignments from expressed sequence tags

    Article • Bioinformatics, February 2000, Oxford University Press (OUP)

    Professor Geoff Barton

  95. Application of multiple sequence alignment profiles to improve protein secondary structure prediction

    Article • Proteins Structure Function and Bioinformatics, January 2000, Wiley

    Professor Geoff Barton

  96. Evaluation and improvement of multiple sequence methods for protein secondary structure prediction

    Article • Proteins Structure Function and Bioinformatics, March 1999, Wiley

    Professor Geoff Barton

  97. Deposition of Macromolecular Structures

    Article • Acta Crystallographica Section D Biological Crystallography, November 1998, International Union of Crystallography

    Professor Geoff Barton

  98. JPred: a consensus secondary structure prediction server

    Article • Bioinformatics, November 1998, Oxford University Press (OUP)

    Professor Geoff Barton

  99. Protein Sequence Alignment Techniques

    Article • Acta Crystallographica Section D Biological Crystallography, November 1998, International Union of Crystallography

    Professor Geoff Barton

  100. Re: Letter to the Editor Regarding Deposition of 3D Structural Studies of Biological Macromolecules

    Article • Biochemical and Biophysical Research Communications, April 1998, Elsevier

    Professor Geoff Barton

  101. Conservation of amino acids in multiple alignments: aspartic acid has unexpected conservation

    Article • FEBS Letters, November 1996, Wiley

    Professor Geoff Barton

  102. Protein Fold Recognition by Mapping Predicted Secondary Structures

    Article • Journal of Molecular Biology, June 1996, Elsevier

    Professor Geoff Barton

  103. [29] Identification of functional residues and secondary structure from protein multiple sequence alignment

    Article • January 1996, Elsevier

    Professor Geoff Barton

  104. Crystal structure of isopenicillin N synthase is the first from a new structural family of enzymes

    Article • Nature, June 1995, Springer Science + Business Media

    Professor Geoff Barton

  105. Protein secondary structure prediction

    Article • Current Opinion in Structural Biology, June 1995, Elsevier

    Professor Geoff Barton

  106. Structural Features can be Unconserved in Proteins with Similar Folds

    Article • Journal of Molecular Biology, December 1994, Elsevier

    Professor Geoff Barton

  107. scop: structural classification of proteins

    Article • Trends in Biochemical Sciences, December 1994, Elsevier

    Professor Geoff Barton

  108. A Structural Analysis of Phosphate and Sulphate Binding Sites in Proteins Estimation of Propensities for Binding and Conservation of Phosphate Binding Sites

    Article • Journal of Molecular Biology, September 1994, Elsevier

    Professor Geoff Barton

  109. Structural similarity between the p17 matrix protein of HIV-1 and interferon-γ

    Article • Nature, August 1994, Springer Science + Business Media

    Professor Geoff Barton

  110. Conservation analysis and structure prediction of the protein serine/threonine phosphatases. Sequence similarity with diadenosine tetraphosphatase from Escherichia coli suggests homology to the protein phosphatases

    Article • European Journal of Biochemistry, February 1994, Wiley

    Professor Geoff Barton

  111. The Limits of Protein Secondary Structure Prediction Accuracy from Multiple Sequence Alignment

    Article • Journal of Molecular Biology, December 1993, Elsevier

    Professor Geoff Barton

  112. An SH2—SH3 domain hybrid

    Article • Nature, August 1993, Springer Science + Business Media

    Professor Geoff Barton

  113. Protein structure prediction

    Article • Nature, February 1993, Springer Science + Business Media

    Professor Geoff Barton

  114. Secondary structure prediction for modelling by homology

    Article • Protein Engineering Design and Selection, January 1993, Oxford University Press (OUP)

    Professor Geoff Barton

  115. ALSCRIPT: a tool to format multiple sequence alignments

    Article • Protein Engineering Design and Selection, January 1993, Oxford University Press (OUP)

    Professor Geoff Barton

  116. Multiple protein sequence alignment from tertiary structure comparison: Assignment of global and residue confidence levels

    Article • Proteins Structure Function and Bioinformatics, October 1992, Wiley

    Professor Geoff Barton

  117. Computer speed and sequence comparison

    Article • Science, September 1992, American Association for the Advancement of Science

    Professor Geoff Barton

  118. Generation and interpretation of protein sequence and structural multiple alignments

    Article • Journal of Protein Chemistry, August 1992, Springer Science + Business Media

    Professor Geoff Barton

  119. Conservation analysis and structure prediction of the SH2 family of phosphotyrosine binding domains

    Article • FEBS Letters, June 1992, Wiley

    Professor Geoff Barton

  120. Human platelet-derived endothelial cell growth factor is homologous toEscherichia colithymidine phosphorylase

    Article • Protein Science, May 1992, Wiley

    Professor Geoff Barton

  121. Amino acid sequence analysis of the annexin super-gene family of proteins

    Article • European Journal of Biochemistry, June 1991, Wiley

    Professor Geoff Barton

  122. Prediction of domain organisation and secondary structure of thyroid peroxidase, a human autoantigen involved in destructive thyroiditis

    Article • FEBS Letters, June 1990, Wiley

    Professor Geoff Barton

  123. A knowledge-based architecture for protein sequence analysis and structure prediction

    Article • Journal of Molecular Graphics, June 1990, Elsevier

    Professor Geoff Barton

  124. Flexible protein sequence patterns

    Article • Journal of Molecular Biology, March 1990, Elsevier

    Professor Geoff Barton

  125. [25] Protein multiple sequence alignment and flexible pattern matching

    Article • January 1990, Elsevier

    Professor Geoff Barton

  126. A strategy for the rapid multiple alignment of protein sequences

    Article • Journal of Molecular Biology, November 1987, Elsevier

    Professor Geoff Barton

  127. Prediction of antigenic determinants and secondary structures of the major AIDS virus proteins

    Article • FEBS Letters, June 1987, Wiley

    Professor Geoff Barton

  128. Prediction of protein secondary structure and active sites using the alignment of homologous sequences

    Article • Journal of Molecular Biology, June 1987, Elsevier

    Professor Geoff Barton

  129. AIDS vaccine predictions

    Article • Nature, April 1987, Springer Science + Business Media

    Professor Geoff Barton

  130. Evaluation and improvements in the automatic alignment of protein sequences

    Article • Protein Engineering Design and Selection, January 1987, Oxford University Press (OUP)

    Professor Geoff Barton