Bioinformatics, in proteomics

Thiele H (2003) Mass spectrometry and bioinformatics in proteomics. Chance 16 29-36... 

Proteomics is an interdisciplinary science that includes biology, bioinformatics, and protein chemistry. The purpose of this book is to provide the reader with an overview of the types of questions being addressed in proteomics studies and the technologies used to address those questions. The first chapter is a concise outline of the field as it presently stands. The second chapter provides an overview of the use of 2D-gel electrophoresis and mass spectrometry to identify proteins, as well as post-translational... 

Bioinformatics is of enormous benefit in proteomic and pharmacoproteomic research. Structural bioinformatics and functional bioinformatics are powerful... 

Augen, J., 2005, Bioinformatics in the post-genomic era Genome, transcriptome, proteome, and information-based medicine, Addison-Wesley (388 pages, paperback). 

Explain the importance of bioinformatics in relation to proteomics and genomics. 

Bioinformatics The use of information technology to analyze data obtained from proteomic analysis. An example is the use of databases such as SWISSPROT to identify proteins from sequence information determined by the mass spec-trometric analysis of peptides. See Wang, J.T.L., Data Mining in Bioinformatics, Springer, London, 2005 Lesk, A.M., Introduction to Bioinformatics, Oxford University Press, New York, 2005 Englbrecht, C.C. and Facius, A., Bioinformatics challenges in proteomics. Comb. Chem. High... 

Molecular and Cellular Proteomics. Bethesda, MD American Society for Biochemistry and Molecular Biology. Monthly. ISSN 1535-9476. Scope includes structural and functional properties of proteins and their expression, developmental time courses of the organism, how the presence or absence of proteins affects biological responses and how the interaction of proteins with germane cellular partners allows them to function, and advances in methodology, array technologies, changes in expression of the proteins, calculations and/or predictions, and aspects of bioinformatics that address needs in proteomics. 

Proteomics started with the development of methods for the purification of proteins. Initially, it involved the purification of one protein at a time mostly by column chromatography. Electrofocusing of proteins was a major development in protein purification, which led into development two-dimensional (2D) gel. Two-dimensional gel resulted in the purification of many proteins on one gel for subsequent characterization. The development of mass spectrometry, genomics, and bioinformatics brought a revolution in proteomics. Now, several proteins can be analyzed simultaneously. 

Life in extreme environments (2) scale-up of bench- to full-scale processes (2) application of microbiological biotransformations to industrial processes (2) conversion from batch to continuous processes (1) bioavailability (4) structure-activity relationships (8) new enzymes bioinformatics (4) proteomics and genomics (4)... 

The rescent advances made in bioinformatics as well as in proteomics are particularly impressive, and a number of proteomic databases dealing with plasma and/or blood cells are now available on the Internet (Table 1). 

Lester, P.J. and Hubbard, S.J. 2002, Comparative bioinformatic analysis of complete proteomes and protein parameters for cross-species identification in proteomics. Proteomics 2-. 1392-1405. 

Augen, J. (2004) Bioinformatics in the Post-Genome Era Genome, Transcriptome, Proteome and Information-based Medicine, Addison Wesley Professional, Boston, MA. 

One of the main objectives of research in proteomics is the automation of all procedures from sample acquisition to protein identification. The role of bioinformatics is to treat all available data to obtain unique identification of proteins without human intervention. The recent generation of mass spectrometers are producing more accurate data, with precise mass values using MS" where n are successive stages of mass spectrometry [176, 177]. 

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