A Cell Biologist's Guide to Modeling and Bioinformatics by Raquell M. Holmes

By Raquell M. Holmes

A step by step consultant to utilizing computational instruments to resolve difficulties in mobile biologyCombining specialist dialogue with examples that may be reproduced through the reader, A telephone Biologist's advisor to Modeling and Bioinformatics introduces an array of informatics instruments which are to be had for interpreting organic information and modeling mobile strategies. You learn how to totally leverage public databases and create your individual computational types. All that you just desire is a operating wisdom of algebra and mobile biology; the writer offers the entire different instruments you must comprehend the mandatory statistical and mathematical methods.Coverage is split into major categories:Molecular series database chapters are devoted to gaining an figuring out of instruments and strategies—including queries, alignment tools, and statistical importance measures—needed to enhance searches for series similarity, protein households, and putative useful domain names. Discussions of series alignments and organic database looking out concentrate on publicly on hand assets used for heritage examine and the characterization of novel gene products.Modeling chapters take you thru all of the steps occupied with making a computational version for such simple study parts as telephone cycle, calcium dynamics, and glycolysis. each one bankruptcy introduces a brand new simulation tooland is predicated on released study. the mix creates a wealthy context for ongoing ability and data improvement in modeling organic learn systems.Students phone biologists can enhance the elemental talents had to study computational telephone biology. This particular textual content, with its step by step guideline, allows you to attempt and strengthen your new bioinformatics and modeling talents. References are supplied that can assist you make the most of extra complicated ideas, applied sciences, and training. 

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Extra resources for A Cell Biologist's Guide to Modeling and Bioinformatics

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Nucleic Acids Research 34(Database issue):D10–D15. Dayhoff MO, Schwartz RM, Orcutt BC (1978). A model of evolutionary change in proteins. In: Dayhoff MO, ed. Atlas of Protein Sequence and Structure, Vol. 5, Suppl. 3. : National Biomedical Research Foundation; pp. 345–352. Durbin R, Eddy SR, Krogh A, Mitchison G (1998). Biological Sequence Analysis: Probabilistic Models of Protein and Nucleic Acids. Cambridge: Cambridge University Press; 356p. George DG, Barker WC, Hunt LT (1990). Mutation data matrix and its uses.

Wootton JC, Federhen S (1996). Analysis of compositionally biased regions in sequence databases. Methods in Enzymology 266:554– 71. Zhang Z, Schwartz S, Wagner L, et al. (2000). A greedy algorithm for aligning DNA sequences. Journal of Computational Biology 7(1-2):203–214. Chapter 3 Family-Domain Databases Once a protein sequence is obtained, there are many questions that can be asked. What is the protein’s overall identity? What putative functions does it have? What biological motifs are present?

Additionally, the National Science Foundation and other funding agencies have invested in research resources—data storage, compute time, and software—that are publicly available. As such, typically initial research can be performed with a Web browser and ethernet connection, 10 Megabits (Mbits) per second. These same resource providers have workshops and tutorials available for members of the research community to learn about and make use of these tools. , 1998; Mount, 2001). As well, the methods of sequence alignment and database searches have become sufficiently standard that protocols are now available for the lab.

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