Sequence Data Analysis Guidebook / Edition 1 available in Hardcover
- Pub. Date:
- Springer-Verlag New York, LLC
Leading researchers concisely summarize their hands-on experiences and methods for successfully using the most popular sequence analysis software packages available. These experts demonstrate how to examine the data produced by modern automated sequencers, how to assess its quality, how to remove extraneous data, how to align multiple overlapping sequence fragments for either assembly into sequence contigs or comparison with similar sequences from different sources. Procedures for comparing newly derived sequences with the massive amounts of information in the sequence databases are fully covered, as are techniques for performing restriction analysis, searching for open reading frames, calculating the translation products of open reading frames, and making detailed analyses of the expressed "proteins."
Table of ContentsGeneJockeyII: Entering and Editing Sequences, Phil Taylor. The Genetic Data Environment: A User Modifiable and Expandable Multiple Sequence Analysis Package, Jonathan A. Eisen. ABI Analysis: Manipulation of Sequence Data from the ABI DNA Sequencer, Tracy L. Hagemann and Sau-Ping Kwan. SeqEd: Manipulation of Sequence Data and Chromatograms from the ABI DNA Sequencer Analysis Files, Tracy L. Hagemann and Sau-Ping Kwan. From ABI Sequence Data to LASERGENE'S EDITSEQ, Catherine Arnold and Jonathan P. Clewley. Seqman: Contig Assembly, Simon R. Swindell. GeneJockeyII: DNA Sequencing and Fragment Assembly, Phil Taylor. AutoAssembler, Steven R. Parker. MEGALIGN: The Multiple Alignment Module of LASERGENE, Jonathan P. Clewley and Catherine Arnold. GeneJockeyII: Pairwise Sequence Comparison, Phil Taylor. GeneJockeyII: Multiple Alignment of Homologous Sequences, Phil Taylor. Sequence Navigator: Multiple Sequence Alignment Software, Steven R. Parker. The European Bioinformatics Institute: Network Services, Tomas P. Flores and Robert A. Harper. InheritTM Gene Assist: Smith-Waterman and Other Database Similarity Searches and Identification of Motifs, Eugene G. Shpaer. GENEMAN of LASERGENE, Jonathan P. Clewley. GeneJockeyII: Database Searching, Phil Taylor. GeneJockeyII: Restriction Analysis, Phil Taylor. GeneJockeyII: Translation and Open Reading Frame Analysis, Phil Taylor. PROTEAN: Protein Sequence Analysis and Prediction, Thomas N. Plasterer. MAPDRAW: Restriction Mapping and Analysis, Thomas N. Plasterer. The Gene Construction Kit: DNA Sequence Analysis and Presentation, Bruce R. Troen. GeneJockeyII: Primer Design, Phil Taylor. OLIGO: Primer Selection, Juan Jose Estruch. PRIME: Primer Selection, Juan Jose Estruch. PRIMERSELECT: Primer and Probe Design, Thomas N. Plasterer. The European Bioinformatics Institute: Submission and Updating of Sequence Databases, Tomas P. Flores and Benny Shomer. Index.