James R Brown

Summary

Affiliation: GlaxoSmithKline Research and Development
Country: USA

Publications

  1. ncbi request reprint Bioinformatics and the discovery of novel anti-microbial targets
    Craig Volker
    Bioinformatics Division, GlaxoSmithKline, 1250 South Collegeville Road, UP1345 Collegeville, Pennsylvania 19426, USA
    Curr Drug Targets Infect Disord 2:279-90. 2002
  2. pmc Host response to respiratory bacterial pathogens as identified by integrated analysis of human gene expression data
    Steven B Smith
    Computational Biology, Quantitative Sciences, GlaxoSmithKline, Collegeville, Pennsylvania, United States of America Institute for Genome Science, University of Maryland, Baltimore, Maryland, United States of America
    PLoS ONE 8:e75607. 2013
  3. pmc Target prediction for an open access set of compounds active against Mycobacterium tuberculosis
    Francisco Martínez-Jiménez
    Genome Biology Group, Centre Nacional d Anàlisi Genòmica CNAG, Barcelona, Spain Gene Regulation Stem Cells and Cancer Program, Centre for Genomic Regulation CRG, Barcelona, Spain
    PLoS Comput Biol 9:e1003253. 2013
  4. pmc Identification of common biological pathways and drug targets across multiple respiratory viruses based on human host gene expression analysis
    Steven B Smith
    Department of Bioengineering, University of Pennsylvania, Philadelphia, Pennsylvania, United States of America
    PLoS ONE 7:e33174. 2012
  5. doi request reprint Data mining the human gut microbiota for therapeutic targets
    Matthew Collison
    Biopharmaceutical Process Development Centre, School of Chemical Engineering and Advanced Materials, Newcastle University, UK
    Brief Bioinform 13:751-68. 2012
  6. pmc Evolutionary relationships of Aurora kinases: implications for model organism studies and the development of anti-cancer drugs
    James R Brown
    Bioinformatics Division, Genetics Research, GlaxoSmithKline, 1250 South Collegeville Road, UP1345, P, O, Box 5089, Collegeville, Pennsylvania 19426 0989, USA
    BMC Evol Biol 4:39. 2004
  7. ncbi request reprint Phylogeny of gamma-proteobacteria: resolution of one branch of the universal tree?
    James R Brown
    Bioinformatics Division, Genetics Research, GlaxoSmithKline, Collegeville, Pennsylvania 19426 0989, USA
    Bioessays 26:463-8. 2004
  8. pmc Phylogenomics of phosphoinositide lipid kinases: perspectives on the evolution of second messenger signaling and drug discovery
    James R Brown
    Computational Biology, Quantitative Sciences, GlaxoSmithKline, 1250 South Collegeville Road, UP1345, P, O, Box 5089, Collegeville, PA 19426 0989, USA
    BMC Evol Biol 11:4. 2011
  9. ncbi request reprint Ancient horizontal gene transfer
    James R Brown
    Bioinformatics Division, GlaxoSmithKline, 1250 South Collegeville Road, UP1345 Collegeville, Pennsylvania 19426, USA
    Nat Rev Genet 4:121-32. 2003
  10. doi request reprint Molecular evolutionary analysis of cancer cell lines
    Yan Zhang
    Department of Biology, Pennsylvania State University, University Park, Pennsylvania, USA
    Mol Cancer Ther 9:279-91. 2010

Collaborators

Detail Information

Publications28

  1. ncbi request reprint Bioinformatics and the discovery of novel anti-microbial targets
    Craig Volker
    Bioinformatics Division, GlaxoSmithKline, 1250 South Collegeville Road, UP1345 Collegeville, Pennsylvania 19426, USA
    Curr Drug Targets Infect Disord 2:279-90. 2002
    ....
  2. pmc Host response to respiratory bacterial pathogens as identified by integrated analysis of human gene expression data
    Steven B Smith
    Computational Biology, Quantitative Sciences, GlaxoSmithKline, Collegeville, Pennsylvania, United States of America Institute for Genome Science, University of Maryland, Baltimore, Maryland, United States of America
    PLoS ONE 8:e75607. 2013
    ..Furthermore, 36 host-bacterial pathways were also shared with our previous results for respiratory virus host gene expression. Based on our pathway analysis we propose several drug-repurposing opportunities supported by the literature. ..
  3. pmc Target prediction for an open access set of compounds active against Mycobacterium tuberculosis
    Francisco Martínez-Jiménez
    Genome Biology Group, Centre Nacional d Anàlisi Genòmica CNAG, Barcelona, Spain Gene Regulation Stem Cells and Cancer Program, Centre for Genomic Regulation CRG, Barcelona, Spain
    PLoS Comput Biol 9:e1003253. 2013
    ..The results from our analysis, including the predicted structural models, are available to the wider scientific community in the open source mode, to encourage further development of novel TB therapeutics...
  4. pmc Identification of common biological pathways and drug targets across multiple respiratory viruses based on human host gene expression analysis
    Steven B Smith
    Department of Bioengineering, University of Pennsylvania, Philadelphia, Pennsylvania, United States of America
    PLoS ONE 7:e33174. 2012
    ..The availability of large-scale genomic datasets focused on host-pathogen interactions can be used to discover novel drug targets as well as potential opportunities for drug repositioning...
  5. doi request reprint Data mining the human gut microbiota for therapeutic targets
    Matthew Collison
    Biopharmaceutical Process Development Centre, School of Chemical Engineering and Advanced Materials, Newcastle University, UK
    Brief Bioinform 13:751-68. 2012
    ..In addition, integrative bioinformatics analysis will further our understanding of the microbial biotransformation of exogenous compounds or xenobiotics, which could lead to safer and more efficacious drugs...
  6. pmc Evolutionary relationships of Aurora kinases: implications for model organism studies and the development of anti-cancer drugs
    James R Brown
    Bioinformatics Division, Genetics Research, GlaxoSmithKline, 1250 South Collegeville Road, UP1345, P, O, Box 5089, Collegeville, Pennsylvania 19426 0989, USA
    BMC Evol Biol 4:39. 2004
    ..However, the ortholog and paralog relationships of these kinases across various species have not been rigorously examined. Here, we present comprehensive evolutionary analyses of the Aurora kinase family...
  7. ncbi request reprint Phylogeny of gamma-proteobacteria: resolution of one branch of the universal tree?
    James R Brown
    Bioinformatics Division, Genetics Research, GlaxoSmithKline, Collegeville, Pennsylvania 19426 0989, USA
    Bioessays 26:463-8. 2004
    ..Thus, any thorough reconstruction of bacterial evolution must not only choose a suitable set of molecular markers but also strive to reduce potential bias in the selection of species...
  8. pmc Phylogenomics of phosphoinositide lipid kinases: perspectives on the evolution of second messenger signaling and drug discovery
    James R Brown
    Computational Biology, Quantitative Sciences, GlaxoSmithKline, 1250 South Collegeville Road, UP1345, P, O, Box 5089, Collegeville, PA 19426 0989, USA
    BMC Evol Biol 11:4. 2011
    ..Here, we report the genomic occurrences and evolutionary relationships or phylogenomics of all three PIK families across major eukaryotic groups and suggest potential ramifications for drug discovery...
  9. ncbi request reprint Ancient horizontal gene transfer
    James R Brown
    Bioinformatics Division, GlaxoSmithKline, 1250 South Collegeville Road, UP1345 Collegeville, Pennsylvania 19426, USA
    Nat Rev Genet 4:121-32. 2003
  10. doi request reprint Molecular evolutionary analysis of cancer cell lines
    Yan Zhang
    Department of Biology, Pennsylvania State University, University Park, Pennsylvania, USA
    Mol Cancer Ther 9:279-91. 2010
    ..Our study shows the potential role of molecular evolutionary analyses in tumor classification and the development of novel anticancer strategies...
  11. pmc Molecular evolution perspectives on intraspecific lateral DNA transfer of topoisomerase and gyrase loci in Streptococcus pneumoniae, with implications for fluoroquinolone resistance development and spread
    Michael J Stanhope
    Bioinformatics, GlaxoSmithKline, Collegeville, Pennsylvania 19426, USA
    Antimicrob Agents Chemother 49:4315-26. 2005
    ..pneumoniae population density, such events could be an important means of resistance spread...
  12. pmc Horizontal transfer of drug-resistant aminoacyl-transfer-RNA synthetases of anthrax and Gram-positive pathogens
    James R Brown
    Bioinformatics Division, GlaxoSmithKline, 1250 South Collegeville Road, UP1345, Collegeville, Pennsylvania 19426, USA
    EMBO Rep 4:692-8. 2003
    ..This study shows the importance of understanding complex evolutionary networks of ancient horizontal gene transfer for the development of novel antibiotics...
  13. ncbi request reprint Computational biology in anti-tuberculosis drug discovery
    Dennis J Murphy
    Computational Biology, Quantitative Sciences, GlaxoSmithKline, 1250 South Collegeville Road, UP1345, P O Box 5089, Collegeville PA 19426 0989, USA
    Infect Disord Drug Targets 9:319-26. 2009
    ..However, the translation of in silico predictions to effective clinical therapies remains a significant challenge...
  14. ncbi request reprint A global approach to identify novel broad-spectrum antibacterial targets among proteins of unknown function
    Magdalena Zalacain
    Microbial, Musculoskeletal and Proliferative Diseases CEDD, Collegeville, PA 17426, USA
    J Mol Microbiol Biotechnol 6:109-26. 2003
    ..Moreover, this study demonstrates that different experimental procedures can produce apparently contradictory results...
  15. pmc Identification of gene targets against dormant phase Mycobacterium tuberculosis infections
    Dennis J Murphy
    Informatics, Molecular Discovery Research, GlaxoSmithKline, Collegeville, PA 19426 0989, USA
    BMC Infect Dis 7:84. 2007
    ..Eradication of TB is affected by the ability of the bacterium to survive up to decades in a dormant state primarily in hypoxic granulomas in the lung and to cause recurrent infections...
  16. pmc Phylogenomic and biochemical characterization of three Legionella pneumophila polypeptide deformylases
    Jianzhong Huang
    Microbiology Department, GlaxoSmithKline, 1250 S Collegeville Road, Collegeville, PA 19426, USA
    J Bacteriol 188:5249-57. 2006
    ..pneumophila. These results indicate that even though L. pneumophila has three PDFs, they can be effectively inhibited by PDF inhibitors which can, therefore, have potent anti-L. pneumophila activity...
  17. pmc Comparative genomics of Klebsiella pneumoniae strains with different antibiotic resistance profiles
    Vinod Kumar
    Computational Biology, Quantitative Sciences, GlaxoSmithKline, King of Prussia, Pennsylvania, USA
    Antimicrob Agents Chemother 55:4267-76. 2011
    ..Our study adds new and significant DNA sequence data on K. pneumoniae strains and demonstrates the value of whole-genome sequencing in characterizing multidrug resistance in clinical isolates...
  18. doi request reprint Novel drug target strategies against Mycobacterium tuberculosis
    Dennis J Murphy
    Computational Biology, Molecular Discovery Research, GlaxoSmithKline, 1250 South Collegeville Road, UP1345, P O Box 5089, Collegeville, PA 19426 0989, USA
    Curr Opin Microbiol 11:422-7. 2008
    ..Recent work, especially the identification genes involved in regulatory networks and the Enduring Hypoxic Response (EHR), hold promise for developing new drugs targeting dormancy phase MTB...
  19. ncbi request reprint The micro RNA target paradigm: a fundamental and polymorphic control layer of cellular expression
    Michael R Barnes
    Molecular Discovery Research Informatics, Molecular Discovery Research, GlaxoSmithKline Pharmaceuticals, New Frontiers Science Park North, Third Avenue, Harlow, Essex, CM 19 5AW, UK
    Expert Opin Biol Ther 7:1387-99. 2007
    ..Second, one may be able to identify miRNA target variants in mRNA with a direct role in human disease, which may be valuable therapeutic targets...
  20. doi request reprint Computational biology approaches for selecting host-pathogen drug targets
    James R Brown
    Computational Biology, GlaxoSmithKline, 1250 South Collegeville Road, UP1345, PO Box 5089, Collegeville, PA 19426 0989, USA
    Drug Discov Today 16:229-36. 2011
    ..Using the hepatitis C virus interactome as an example, here we suggest a computational biology framework for identifying and prioritizing potential human host targets against infectious diseases...
  21. pmc The evolution of core proteins involved in microRNA biogenesis
    Dennis Murphy
    Bioinformatics, Molecular Discovery Research, GlaxoSmithKline, 1250 South Collegeville Road, UP1345, Collegeville, Pennsylvania 19426, USA
    BMC Evol Biol 8:92. 2008
    ....
  22. ncbi request reprint Evidence from the evolutionary analysis of nucleotide sequences for a recombinant history of SARS-CoV
    Michael J Stanhope
    Bioinformatics Division, Genetics Research, GlaxoSmithKline, 1250 South Collegeville Road, Collegeville, PA 19426, USA
    Infect Genet Evol 4:15-9. 2004
    ..Our results are consistent with a hypothesis of viral host jumping events, concomitant with the reassortment of bird and mammalian coronaviruses, a scenario analogous to earlier outbreaks of influenzae...
  23. ncbi request reprint A computational view of microRNAs and their targets
    James R Brown
    GlaxoSmithKline, Bioinformatics Discovery and Analysis, Upper Providence, 1250 South Collegeville Road, UP1345, PO Box 5089, Collegeville, PA 19426 0989, USA
    Drug Discov Today 10:595-601. 2005
    ..In this review, the nature and function of microRNAs will be discussed, with special emphasis on the computational tools and databases available to predict microRNAs and the genes they target...
  24. pmc Variable sensitivity to bacterial methionyl-tRNA synthetase inhibitors reveals subpopulations of Streptococcus pneumoniae with two distinct methionyl-tRNA synthetase genes
    Daniel R Gentry
    Department of Microbiology, Microbial, Musculoskeletal, and Proliferative Diseases Center of Excellence for Drug Discovery, GlaxoSmithKline, Collegeville, Pennsylvania 19426, USA
    Antimicrob Agents Chemother 47:1784-9. 2003
    ..pneumoniae is the result of horizontal gene transfer which has been driven by selection for resistance to some unknown class of naturally occurring antibiotics with similarities to recently reported synthetic MetS inhibitors...
  25. doi request reprint Minipig and beagle animal model genomes aid species selection in pharmaceutical discovery and development
    Jessica J Vamathevan
    Computational Biology, Quantitative Sciences, GlaxoSmithKline, Stevenage, UK
    Toxicol Appl Pharmacol 270:149-57. 2013
    ..These data will facilitate the more effective use of animals in biomedical research...
  26. ncbi request reprint Modulating the human gut microbiome as an emerging therapeutic paradigm
    Deepak K Rajpal
    Computational Biology, GlaxoSmithKline, Research Triangle Park, NC 27709, USA
    Sci Prog 96:224-36. 2013
    ..Here we provide an overview of present knowledge about the gut microbiome, its putative role in metabolic diseases and the potential for microbiome focused treatments from the drug development perspective...
  27. pmc Inhibitors of pantothenate kinase: novel antibiotics for staphylococcal infections
    Anthony E Choudhry
    Microbial, Musculoskeletal and Proliferative Diseases and Bioinformatics, GlaxoSmithKline Pharmaceuticals, Collegeville Pennsylvania 19426, USA
    Antimicrob Agents Chemother 47:2051-5. 2003
    ..Here we report the identification of the Staphylococcus aureus coaA gene and characterization of the enzyme. We have also identified a series of low-molecular-weight compounds which are effective inhibitors of S. aureus CoaA...
  28. ncbi request reprint The ARO4 gene of Candida albicans encodes a tyrosine-sensitive DAHP synthase: evolution, functional conservation and phenotype of Aro3p-, Aro4p-deficient mutants
    Silvino Sousa
    Department of Comparative Genomics, Glaxo SmithKline, King of Prussia, PA 19406, USA
    Microbiology 148:1291-303. 2002
    ..It is concluded that, like S. cerevisiae, C. albicans contains two DAHP synthases required for the first step in the aromatic amino acid biosynthetic pathway...