Pinney, John - Imperial College London - Department of Life Sciences, Biochemistry and Biotechnology

个人简介

I am a Royal Society University Research Fellow in the Theoretical Systems Biology group at Imperial. My research focuses on computational systems biology, drawing together information from macromolecular sequences, protein structures, biological networks and other experimental data to study the evolution and function of biological systems.

研究领域

I am interested in network analysis from a bioinformatic perspective, including the reconstruction and evolutionary modelling of metabolic, protein-protein interaction and gene regulatory networks. The application of these methods to study the various networks of interactions between host and pathogen has great potential for the discovery of new therapeutic targets in diseases such as HIV/AIDS, malaria and tuberculosis. The analysis of large and complex data sets can produce results that are not easily summarised by conventional means. I am therefore also interested in the development of new information visualization strategies for various types of biological data.

近期论文

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Ames RM, Macpherson JI, Pinney JW, Lovell SC, Robertson DLet al., 2013, Modular biological function is most effectively captured by combining molecular interaction data types., PLoS One, Vol: 8 Bryant WA, Faruqi AA, Pinney JW, 2013, Analysis of Metabolic Evolution in Bacteria Using Whole-Genome Metabolic Models, JOURNAL OF COMPUTATIONAL BIOLOGY, Vol: 20, Pages: 755-764, ISSN: 1066-5277 Bryant WA, Sternberg MJE, Pinney JW, 2013, AMBIENT: Active Modules for Bipartite Networks - using high-throughput transcriptomic data to dissect metabolic response, BMC SYSTEMS BIOLOGY, Vol: 7, ISSN: 1752-0509 Liberal R, Pinney JW, 2013, Simple topological properties predict functional misannotations in a metabolic network., Bioinformatics, Vol: 29, Pages: i154-i161 Williams KJ, Bryant WA, Jenkins VA, Barton GR, Witney AA, Pinney JW, Robertson BDet al., 2013, Deciphering the response of Mycobacterium smegmatis to nitrogen stress using bipartite active modules, BMC GENOMICS, Vol: 14, ISSN: 1471-2164 Sheng X, Huvet M, Pinney J, Stumpf MPHet al., 2012, Evolutionary Characteristics of Bacterial Two-Component Systems, EVOLUTIONARY SYSTEMS BIOLOGY, Vol: 751, Pages: 121-137, ISSN: 0065-2598 Huvet M, Toni T, Sheng X, Thorne T, Jovanovic G, Engl C, Buck M, Pinney JW, Stumpf MPHet al., 2011, The Evolution of the Phage Shock Protein Response System: Interplay between Protein Function, Genomic Organization, and System Function, MOLECULAR BIOLOGY AND EVOLUTION, Vol: 28, Pages: 1141-1155, ISSN: 0737-4038 Pinney JW, 2011, Host-pathogen systems biology, Handbook of Statistical Systems Biology, Editors: Stumpf, Balding, Girolami, Publisher: Wiley, Pages: 451-466, ISBN: 9781119970613 Coletta A, Pinney JW, Solís DY, Marsh J, Pettifer SR, Attwood TKet al., 2010, Low-complexity regions within protein sequences have position-dependent roles., BMC Syst Biol, Vol: 4 Dickerson JE, Pinney JW, Robertson DL, 2010, The biological context of HIV-1 host interactions reveals subtle insights into a system hijack., BMC Syst Biol, Vol: 4 MacPherson JI, Dickerson JE, Pinney JW, Robertson DLet al., 2010, Patterns of HIV-1 protein interaction identify perturbed host-cellular subsystems., PLoS Comput Biol, Vol: 6 Gaskell EA, Smith JE, Pinney JW, Westhead DR, McConkey GAet al., 2009, A unique dual activity amino acid hydroxylase in Toxoplasma gondii., PLoS One, Vol: 4 Humphries JD, Byron A, Bass MD, Craig SE, Pinney JW, Knight D, Humphries MJet al., 2009, Proteomic analysis of integrin-associated complexes identifies RCC2 as a dual regulator of Rac1 and Arf6., Sci Signal, Vol: 2 Huxley-Jones J, Pinney JW, Archer J, Robertson DL, Boot-Handford RPet al., 2009, Back to basics - how the evolution fo the extracellular matrix underpinned vertebrate evolution, INTERNATIONAL JOURNAL OF EXPERIMENTAL PATHOLOGY, Vol: 90, Pages: 95-100, ISSN: 0959-9673 Knight CG, Pinney JW, 2009, Making the right connections: biological networks in the light of evolution., Bioessays, Vol: 31, Pages: 1080-1090 MacPherson JI, Pinney JW, Robertson DL, 2009, JNets: Exploring networks by integrating annotation, BMC BIOINFORMATICS, Vol: 10, ISSN: 1471-2105 Pinney JW, Dickerson JE, Fu W, Sanders-Beer BE, Ptak RG, Robertson DLet al., 2009, HIV-host interactions: a map of viral perturbation of the host system, AIDS, Vol: 23, Pages: 549-554, ISSN: 0269-9370 Pinney JW, Stumpf MP, 2009, Evolving proteins at Darwin's bicentenary., Genome Biol, Vol: 10 Ratmann O, Wiuf C, Pinney JW, 2009, From evidence to inference: probing the evolution of protein interaction networks, HFSP JOURNAL, Vol: 3, Pages: 290-306, ISSN: 1955-2068 Adamo A, Pinney JW, Kunova A, Westhead DR, Meyer Pet al., 2008, Heat stress enhances the accumulation of polyadenylated mitochondrial transcripts in Arabidopsis thaliana., PLoS One, Vol: 3