Computer Analysis of Sequence Data Part II / Edition 1by Annette M. Griffin, Hugh G. Griffin
Pub. Date: 02/08/1994
Publisher: Springer-Verlag New York, LLC
These comprehensive, up-to-date handbooks are designed for those scientists engaged in the computer analysis of sequence data who want hands-on help in using the most important commercial software available, but simply do not have the time to become computer experts. The expert authors guide you through the programs with easy-to-follow, step-by-step instructions.… See more details below
These comprehensive, up-to-date handbooks are designed for those scientists engaged in the computer analysis of sequence data who want hands-on help in using the most important commercial software available, but simply do not have the time to become computer experts. The expert authors guide you through the programs with easy-to-follow, step-by-step instructions. The topics covered include translations of sequences, sequence alignment, phylogenetic trees, analysis of RNA secondary structure, database searching, submission of data to EMBL/GenBank/DDBJ/etc., maintaining sequence projects, and using patterns to analyze protein sequences.
Many chapters have been written by world-class authorities in the field, among them R. Staden, M. Gribskov, D. Higgins, W. Pearson, M. Zuker, and G. Barton. Each volume shares five essential chapters concerning the analysis of sequence data, the FASTA program, converting between sequence formats, obtaining software via INTERNET, and the submission of nucleotide sequence data.
Part I covers GCG, MicroGenie, PC/GENE, and FASTA programs.
Part II covers Staden and Staden Plus, DNA Strider, FASTA, and MacVector programs.
Table of Contents
Staden: Introduction. Staden: Sequence Input, Editing, and Sequence Library Use. Staden: Managing Sequence Projects. Staden: Statistical and Structural Analysis of Nucleotide Sequences. Staden: Searching for Restriction Sites. Staden: Translating and Listing Nucleic Acid Sequences. Staden: Searching for Motifs in Nucleic Acid Sequences. Staden: Using Patterns to Analyze Nucleic Acid Sequences. Staden: Analyzing Sequences to Find Genes. Staden: Statistical and Structural Analysis of Protein Sequences. Staden: Searching for Motifs in Protein Sequences. Staden: Using Patterns to Analyze Protein Sequences. Staden: Comparing Sequences. Staden Plus. DNA Strider: A Macintosh Program for Handling Protein and Nucleic Acid Sequences. MacVector: An Integrated Sequence Analysis Program for the Macintosh. MacVector: Aligning Sequences. MacVector: Sequence Comparisons Using a Matrix Method. MacVector: Restriction Enzyme Analysis. MacVector: Protein Analysis. Profile Analysis. Prediction of RNA Secondary Structure by Energy Minimization. Classification and Function Prediction of Proteins Using Diagnostic Amino Acid Patterns. CLUSTAL V: Multiple Alignment of DNA and Protein Sequences. Progressive Multiple Alignment of Protein Sequences and the Construction of Phylogenetic Trees. The AMPS Package for Multiple Protein Sequence Alignment. TreeAlign. Using the FASTA Program to Search Protein and DNA Sequence Databases. Converting Between Sequence Formats. Obtaining Software via INTERNET. Submission of Nucleotide Sequence Data to EMBL/GenBank/DDBJ. Index.
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