Download e-book for iPad: Practical Bioinformatics by Janusz M. Bujnicki

By Janusz M. Bujnicki

ISBN-10: 3540742670

ISBN-13: 9783540742678

ISBN-10: 3540742689

ISBN-13: 9783540742685

The booklet is exclusive in that it bridges the distance among bioinformaticists and molecular biologists, i.e. the builders and the clients of computational equipment for organic information research and in that it provides examples of functional purposes of the bioinformatics instruments within the "daily perform" of an experimental examine scientist.

The booklet begins with studies on computational equipment for protein sequence-structure-function research (sequence reviews, constitution prediction), by way of equipment that explicitly make the most of experimental facts typically acquired within the laboratory to enhance the sensible predictions. the second one half includes a chain of examples on how specific functions of alternative varieties of bioinformatics tools together with experimental reviews to validate the hypotheses have ended in vital medical discoveries.

Therefore, the booklet is a advisor to software of bioinformatics equipment in molecular biology, addressed usually to the examine scientists, postdocs, and complicated graduate students.

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Pac Symp Biocomput 264:75 Xu Y, Xu D (2000) Protein threading using PROSPECT: design and evaluation. Proteins 40 (3):343–354 Yona G, Levitt M (2002) Within the twilight zone: a sensitive profile-profile comparison tool based on information theory. J Mol Biol 315:1257–1275 Zhai Y, Saier MH Jr (2001) A web-based program (WHAT) for the simultaneous prediction of hydropathy, amphipathicity, secondary structure and transmembrane topology for a single protein sequence. J Mol Microbiol Biotechnol 3:501–502 Zhai Y, Saier MH Jr (2002) The beta-barrel finder (BBF) program, allowing identification of outer membrane beta-barrel proteins encoded within prokaryotic genomes.

S. A. (2001) Low-complexity regions in Plasmodium falciparum proteins. Genome Res 11:218–229 Pollastri G, Przybylski D, Rost B, Baldi P (2002) Improving the prediction of protein secondary structure in three and eight classes using recurrent neural networks and profiles. A. Cymerman et al. Rost B, Fariselli P, and Casadio R (1996) Topology prediction for helical transmembrane proteins at 86 % accuracy. Protein Sci 5:1704–1718 Rost B, Sander C, Schneider R (1994) PHD–an automatic mail server for protein secondary structure prediction.

J Mol. Biol 284:1301–1305 Zhou H, Zhou Y (2003) Predicting the topology of transmembrane helical proteins using mean burial propensity and a hidden-Markov-model-based method. M. Bujnicki, D. Fischer 1 Introduction The computational assignment of three-dimensional structures to newly determined protein sequences is becoming an increasingly important element in experimental structure determination and in structural genomics (Fischer et al. 2001a). ). The assignment is carried out by searching a library of known structures (usually obtained from the Protein Data Bank) for a compatible fold.

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Practical Bioinformatics by Janusz M. Bujnicki

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