Towards quantitative biology: integration of biological information to elucidate disease pathways and to guide drug discovery.

作者: Hans Peter Fischer

DOI: 10.1016/S1387-2656(05)11001-1

关键词: ToxicogenomicsData scienceDrug developmentBiological dataDrug discoveryContext (language use)GenomicsBioinformaticsSystems biologyBiologyFluxomics

摘要: Abstract Developing a new drug is tedious and expensive undertaking. The recently developed high-throughput experimental technologies, summarised by the terms genomics, transcriptomics, proteomics metabolomics provide for first time ever means to comprehensively monitor molecular level of disease processes. “-omics” technologies facilitate systematic characterisation target's physiology, thereby helping reduce typically high attrition rates in discovery projects, improving overall efficiency pharmaceutical research Currently, bottleneck taking full advantage are rapidly growing volumes automatically produced biological data. A lack scalable database systems computational tools target has been recognised as major hurdle. In this review, an overview will be given on recent progress biology that impact applications. focus novel silico methods reconstruct regulatory networks, signalling cascades, metabolic pathways, with emphasis comparative genomics microarray-based approaches. Promising methods, such mathematical simulation pathway dynamics discussed context applications projects. review concludes exemplifying concrete data-driven studies demonstrate value integrated identification validation, screening assay development, well candidate efficacy toxicity evaluations.

参考文章(177)
Charles Elkan, Timothy L. Bailey, The value of prior knowledge in discovering motifs with MEME. intelligent systems in molecular biology. ,vol. 3, pp. 21- 29 ,(1995)
Donald T. Moir, Karen J. Shaw, Roberta S. Hare, Gerald F. Vovis, Genomics and antimicrobial drug discovery Antimicrobial Agents and Chemotherapy. ,vol. 43, pp. 439- 446 ,(1999) , 10.1128/AAC.43.3.439
Gustavo Stolovitzky, Andrea Califano, Yuhai Tu, Analysis of Gene Expression Microarrays for Phenotype Classification intelligent systems in molecular biology. ,vol. 8, pp. 75- 85 ,(2000)
Edward M. Marcotte, Matteo Pellegrini, Michael J. Thompson, Todd O. Yeates, David Eisenberg, A combined algorithm for genome-wide prediction of protein function Nature. ,vol. 402, pp. 83- 86 ,(1999) , 10.1038/47048
Anja Petersohn, Jörg Bernhardt, Ulf Gerth, Dirk Höper, Torsten Koburger, Uwe Völker, Michael Hecker, Identification of ςB-Dependent Genes in Bacillus subtilis Using a Promoter Consensus-Directed Search and Oligonucleotide Hybridization Journal of Bacteriology. ,vol. 181, pp. 5718- 5724 ,(1999) , 10.1128/JB.181.18.5718-5724.1999
Oliver Fiehn, Metabolomics - the link between genotypes and phenotypes Plant Molecular Biology. ,vol. 48, pp. 155- 171 ,(2002) , 10.1023/A:1013713905833
Oliver Fiehn, Joachim Kopka, Peter Dörmann, Thomas Altmann, Richard N. Trethewey, Lothar Willmitzer, Metabolite profiling for plant functional genomics Nature Biotechnology. ,vol. 18, pp. 1157- 1161 ,(2000) , 10.1038/81137
Michael Snyder, Mark Gerstein, Defining Genes in the Genomics Era Science. ,vol. 300, pp. 258- 260 ,(2003) , 10.1126/SCIENCE.1084354