![]() Jenuth Resources at EBI Patricia Rodriguez-Tomé Computer-Assisted Analysis of Transcription Control Regions: MatInspector and Other Programs Thomas Werner Computational Approaches for Gene Identification Gautam B. Web-Based Resources Computer Resources for the Clinical and Molecular Geneticist Yuval Yaron and Avi Orr-Urtreger The NCBI: Publicly Available Tools and Resources on the Web Jack P. Retief Annotating Sequence Data Using Genotator Nomi L. Pearson The Use of CLUSTAL W and CLUSTAL X for Multiple Sequence Alignment Ashok Aiyar Phylogenetic Analysis Using PHYLIP Jacques D. Molecular Biology Software Free Software in Molecular Biology for Macintosh and MS Windows Computers Appendix: Software Listings Don Gilbert Flexible Sequence Similarity Searching with the FASTA3 Program Package William R. ![]() Bonfield Building a Multiuser Sequence Analysis Facility Using Freeware Brian Fristensky Part 2. Van Domselaar The Staden Package, 1998 Rodger Staden, Kathryn F. Burland PepTool™ and GeneTool™: Platform-Independent Tools for Biological Sequence Analysis David S. Rastogi DNASTAR's Lasergene Sequence Analysis Software Timothy G. Kramer MacVector: Integrated Sequence Analysis for the Macintosh Promila A. Womble Omiga: A PC-Based Sequence Analysis Tool Jeffrey A. Womble Web-Based Interfaces for the GCG Sequence Analysis Programs David D. Sequence Analysis Packages GCG: The Wisconsin Package of Sequence Analysis Programs David D. In addition, we included sections describing specialized noncommercial software, databases, and other resources available as part of the World Wide Web and a stimul- ing discussion of some of the computational challenges biologists now face and likely future solutions. We divided Bioinformatics Methods and Protocols into five parts, including a thorough survey of the basic sequence analysis software packages that are available at most institutions, as well as the design and implemen- tion of an essential introductory Bioinformatics course. ![]() It builds upon the foundation that was provided in the two-volume set published in 1994 entitled Computer Analysis of Sequence Data. Bioinformatics Methods and Protocols was conceived as part of the Methods in Molecular Biology series to meet this challenge and to provide the experienced user with useful tips and an up-to-date overview of current developments. With the biological revolution now among us, it is imperative that each scientist develop and hone today?s bioinformatics skills, if only at a rudimentary level. This in silico approach to biology has helped to reshape the modern biological sciences. They help to manage the vast and increasing amount of biological data and continue to play an integral role in the discovery of new biological relationships. Computers have become an essential component of modern biology.
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