Sequence Data Analysis Guidebook (Hardcover)

Simon R. Swindell

ISBN 10: 0896033589 / ISBN 13: 9780896033580

Editore: Humana Press Inc., Totowa, NJ, 1996

Hardcover. 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. Computers have revolutionized the analysis of sequencing data. The following chap ters describe the process of aligning multiple sequences in order to assemble overlapping fragments into sequence contigs to compare similar sequences from different sources. Shipping may be from multiple locations in the US or from the UK, depending on stock availability. Codice articolo 9780896033580

Riassunto:

Computers have revolutionized the analysis of sequencing data. It is unlikely that any sequencing projects have been performed in the last few years without the aid of computers. Recently their role has taken a further major step forward. Computers have become smaller and more powerful and the software has become simpler to use as it has grown in sophistication. This book reflects that change since the majority of packages described here are designed to be used on desktop computers. Computer software is now available that can run gels, collect data, and assess its accuracy. It can assemble, align, or compare multiple fragments, perform restriction analyses, identify coding regions and specific motifs, and even design the primers needed to extend the sequencing. Much of this soft­ ware may now be used on relatively inexpensive computers. It is now possible to progress from isolate d DNA to database submission without writing a single base down. To reflect this progression, the chapters in our Sequence Data Analysis Guidebook are arranged, not by software package, but by fimction. The early chapters deal with examining the data produced by modem automated sequenc­ ers, assessing its quality, and removing extraneous data. The following chap­ ters describe the process of aligning multiple sequences in order to assemble overlapping fragments into sequence contigs to compare similar sequences from different sources. Subsequent chapters describe procedures for compar­ ing the newly derived sequence to the massive amounts of information in the sequence databases.

Contenuti: GeneJockeyII: 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.

Dati bibliografici

Titolo: Sequence Data Analysis Guidebook (Hardcover)
Casa editrice: Humana Press Inc., Totowa, NJ
Data di pubblicazione: 1996
Legatura: Hardcover
Condizione: new