Bioinformatics For Dummies
Jean-Michel Claverie
Language: English
Pages: 456
ISBN: 0470089857
Format: PDF / Kindle (mobi) / ePub
Were you always curious about biology but were afraid to sit through long hours of dense reading? Did you like the subject when you were in high school but had other plans after you graduated? Now you can explore the human genome and analyze DNA without ever leaving your desktop!
Bioinformatics For Dummies is packed with valuable information that introduces you to this exciting new discipline. This easy-to-follow guide leads you step by step through every bioinformatics task that can be done over the Internet. Forget long equations, computer-geek gibberish, and installing bulky programs that slow down your computer. You’ll be amazed at all the things you can accomplish just by logging on and following these trusty directions. You get the tools you need to:
- Analyze all types of sequences
- Use all types of databases
- Work with DNA and protein sequences
- Conduct similarity searches
- Build a multiple sequence alignment
- Edit and publish alignments
- Visualize protein 3-D structures
- Construct phylogenetic trees
This up-to-date second edition includes newly created and popular databases and Internet programs as well as multiple new genomes. It provides tips for using servers and places to seek resources to find out about what’s going on in the bioinformatics world. Bioinformatics For Dummies will show you how to get the most out of your PC and the right Web tools so you’ll be searching databases and analyzing sequences like a pro!
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predicting antigenic sites, locating membrane-spanning segments (Chapter 6) ߜ Predicting elements of secondary structure (Chapters 6 and 11) ߜ Predicting the domain organization of proteins (Chapters 6, 7, 9, and 11) ߜ Visualizing protein structures in 3-D (Chapter 11) ߜ Predicting a protein’s 3-D structure from its sequence (Chapter 11) Chapter 1: Finding Out What Bioinformatics Can Do for You ߜ Finding all proteins that share a similar sequence (Chapter 7) ߜ Classifying proteins into families
Bioinformatics Figure 2-18: FASTA sequences ready to be saved to your hard drive. Retrieving DNA Sequences Protein sequences are simple objects with a relatively narrow range of sizes (they’re about 300 amino acids long, plus or minus 200, except for a few giant ones), clearly defined boundaries, and specific functional attributes. Furthermore, proteins of microbes or higher eukaryotes (animal and plants) have roughly the same properties. As you might expect, the corresponding gene (DNA)
of sequence museum, where sequences could be preserved for all eternity in pristine form, just as they were determined, interpreted, and published by their original authors. This historical (time capsule!) perspective pretty much remains in GenBank, the leading nucleotide sequence repository maintained as a consortium between the U.S. National Center for Biotechnology Information (NCBI), the European Molecular Biology Laboratory (EMBL), and the DNA Data Bank of Japan (DDBJ). In this chapter, we
....................................22 More on nucleic acid nomenclature ..................................................23 DNA Coding Regions: Pretending to Work with Protein Sequences ........23 Turning DNA into proteins: The genetic code ..................................24 More with coding DNA sequences .....................................................25 DNA/RNA bioinformatics covered in this book................................26 Working with Entire Genomes
Although he has no clear recollection of it, he has been credited with introducing the French word “bioinformatique” in the late eighties, before involuntarily coining the catchy “bioinformatics” by mistranslating it while giving a talk in English! Jean-Michel’s current research interests are in microbial and structural genomics, and in the development of bioinformatic methods for the prediction of gene function. He is the author or coauthor of more than 150 scientific publications, and a member
