Read e-book online Bioinformatics Methods and Protocols PDF

By David D. Womble (auth.), Stephen Misener, Stephen A. Krawetz (eds.)

ISBN-10: 1617371564

ISBN-13: 9781617371561

In Bioinformatics: tools and Protocols, hands-on clients and specialists survey the most important organic software program applications, supplying precious guidance and an summary of present advancements. one of the series research platforms reviewed are GCG, Omiga, MacVector, DNASTAR, PepTool, GeneTool, and Staden. Molecular biology software program contains Genotator and sequence-similarity looking utilizing FASTA, CLUSTAL a number of series alignment, and phylogenic research. Web-based assets are tested for basic series databases, basic series research equipment, and medical databases necessary in molecular drugs. The ebook additionally encompasses a set of directions for designing and instructing an introductory bioinformatics path and diverse illustrative examples to educate the reader find out how to clear up difficulties.

Bioinformatics: equipment and Protocols deals to skilled and beginner biologists a wide review of the computational instruments that experience reshaped smooth biology. It constitutes a gold-standard reference for trendy scientists who desire to boost and hone their bioinformatics abilities in the direction of the invention of latest organic relationships.

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The sequence view can be used to edit a sequence by hand. This feature can be used to reflect site-specific mutations introduced into the sequence in the laboratory as well as sequence polymorphisms. The edited sequence can then be used to identify new restriction sites generated by the specific alterations. Editing can also be used to add a large piece of one sequence to another sequence to reflect cloning experiments in the laboratory. Thus, an experiment involving the cloning of an insert isolated from a library 1nto a plasmid vector can be simulated us1ng Omiga, provided the sequence of the vector and the insert arc known.

The BioPortal GCG Interface The BioPortal Web-based interface to the GCG programs is similar overall to SeqWeb, although the appearance and many of the details are different. BioPortal also offers access to a core set of some of the most frequently used GCG programs. The java-based interface uses frames, with a Contents frame at the left of the browser screen and a Work Area screen at the right (Fig. 2). The Contents are organized by program function, such as Mapping, and the function menus may be expanded ro show lists of programs, such as Map.

Provides additional information regarding the generation of sequence alignments. The alignment view contains the summary panel, which displays sequence names, and tbe display panel, which shows the actual alignment. 000 or fewer residues can be aligned, however aligning an extremely large number of sequences is a CPU-intensive process, and may cause an unstable operating system to crash. The alignment view can also be used to group sequences, add or edit gap positions, and add additional notations to alignments.

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Bioinformatics Methods and Protocols by David D. Womble (auth.), Stephen Misener, Stephen A. Krawetz (eds.)


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