A timely book for DNA researchers, Automated DNA Sequencing and Analysis reviews and assesses the state of the art of automated DNA sequence analysis-from the construction of clone libraries to the developmentof laboratory and community databases. It presents the methodologies and strategies of automated DNA sequence analysis in a way that allows them to be compared and contrasted. By taking a broad view of the process of automated sequence analysis, the present volume bridges the gap between the protocols supplied with instrument and reaction kits and the finalized data presented in the research literature. It will be an invaluable aid to both small laboratories that are interested in taking maximum advantageof automated sequence resources and to groups pursuing large-scale cDNA and genomic sequencing projects.
* The field of automation in DAN sequencing and analysis is rapidly moving. Hovever, as the technology becomes commonplace, those applying the techniques involved to their research fields need a text which both expands on the protocols supplied by manufacturers with their instruments and explains how to utilise the data produced. This book fulfils those needs, reviews the history of the art and provides pointers to future development.
Papildus informācija
* The field of automation in DAN sequencing and analysis is rapidly moving. Hovever, as the technology becomes commonplace, those applying the techniques involved to their research fields need a text which both expands on the protocols supplied by manufacturers with their instruments and explains how to utilise the data produced. This book fulfils those needs, reviews the history of the art and provides pointers to future development.
Sequencing Instruments and Strategies:
E. Chen, The Efficiency of Automated DNA Sequencing.
G.M. Church, G. Gryan, N. Lakey, S. Kieffer-Higgins, L. Mintz, M. Temple, M.
Rubenfield, L. Jaehn, H. Ghazizadel, K. Robison, and P. Richterick, Automated
Multiplex Sequencing.
X.C. Huang and R.A. Mathies, Application of Capillary Array Electrophoresis
to DNA Sequencing.
R. Drmanac, S. Drmanac, J. Jarvis, and I. Labat, Sequencing by
Hybridization.
A. Martin-Gallardo, J. Lamerdin, and A. Carrano, Shotgun Sequencing.
A. Bodenteich, S. Chissoe, Y.-F. Wang, and B. Roe, Shotgun Cloning as the
Strategy of Choice to Generate Templates for High Throughput
Dideoxynucleotide Sequencing.
C.M. Berg, G. Wang, K. Isono, H. Kasai, and D.E. Berg, Transposon-Facilitated
Large-Scale DNA Sequencing.
C.H. Martin, C.A. Mayeda, C.A. Davis, M.P. Strathmann, and M. Palazzolo,
Transposon-Facilitated Sequencing: An Effective Set of Procedures to Sequence
DNA Fragments Smaller than 4kb.
L. Liu and R.D. Fleischmann, Construction of Exonuclease III Nested Deletion
Sets for Rapid DNA Sequencing.
M. Adams, Expressed Sequence Tags as Tools for Physiology and Genomics.
W.R. McCombie, The Use of Automated DNA Sequencing in the Analysis of cDNAs
of Model Organisms.
Sample Preparation and Sequencing Methods: Libraries:
R.L. Stalligs, N.A. Doggett, A. Ford, J. Longmire, C.E. Hildebrand, L.L.
Deaven, and R. Moyzis, Applications of Cosmid Libraries in Genome Mapping and
Sequencing Efforts.
D.A. Smoller, W.J. Kimmerly, O. Hubbard, C. Ericsson, C.H. Martin, and M.J.
Palazzolo, A Role for the P1 Cloning System in Genome Analysis.
N.A. Doggett, D.L. Grady, J.L. Longmire, and L.L. Deaven, Generation and
Mapping of Chromosome Specific Sequence-Tagged Sites (STS).
R. Moreno and R. Fuldner, Construction of cDNA Libraries.
M.B. Soares, Construction of Directionally Cloned cDNA Libraries and Phagemid
Vectors.
A. Swaroop, Construction of Directional cDNA Libraries.
J.M. Kwak and J.G. Nam, Preparation of cDNA Libraries from Brassica.
J.M. Sikela, T.J. Stevens, J.A. Hopkins, A.S. Wilcox, J. Glod, A.S. Khan, and
A.K. Orpana, Abundance Screening of Human cDNA Libraries.
G. Lennon, High Density Grid Technologies.
Automated Sample Preparation:
D.R. Sibson, Solid Phrase Preparation of Sequencing Templates from PCR
Products.
A. Holmberg, G. Fry, and M. Uhlon, Automatic Preparation of DNA Templatesfor
Sequencing on the ABI Catalyst Robotic Workstation.
T. Hawkins, Custom Magnetic Particles: Their Use in DNA Purification.
Sequencing Methods:
W.R. McCombie and A. Martin-Gallardo, Large-Scale Automated Sequencing of
Human Chromosomal Regions.
L. Rowen and B.F. Koop, Zen and the Art of Large-Scale Genomic Sequencing.
J.M. Kelley, Automated Dye Terminator DNA Sequencing.
D.M. Muzny, S. Richards, Y. Shen, and R.A. Gibbs, PCR Based Strategies for
Gap Closure in Large Scale Sequencing Projects.
S. Richards, D.M. Muzny, A.B. Civitello, F. Lu, and R.A. Gibbs, Sequence Map
Gaps and Directed Reverse Sequencing for the Completion of Large Sequencing
Projects.
F. Iris, Optimized Methods for Large-Scale Shotgun DNASequencing in Alu-Rich
Genomic Regions.
S.G. Burgett and P.R. Rosteck, Jr., Use of Dimethylsulfoxide to Improve
Fluorescent, Tag Cycle Sequencing.
Informatics: Sequence Assembly Theory and Algorithms:
C. Tibbetts, J.M. Bowling, and J.B. Golden, III, Neural Networks for
Automated Base Calling of Gel Based DNA Sequencing Ladders.
G. Myers, Advances in Sequence Assembly.
S. Honda, N.W. Parrott, and C.B. Lawrence, Computer Aided Sequence
Reconstruction: Software Support for Multiple Large-Scale Sequencing
Strategies.
C. Burks, M.L. Engle, S. Forrest, R.J. Parsons, C.A. Soderlund, and P.E.
Stolorz, Relaxation and Optimization Methods for Sequence Assembly.
Data Analysis Tools:
G. Sutton and T. Kerlavage, Software Tools for Protein Similarity Searching.
J.M. Claverie, Large-Scale Sequence Analysis.
J. Shavlik, Finding Frame Shift Errors in Anonymous DNA.
B. Rappaport, J. Gatewood, C. Fields, and N. Doggett, Integrating Repeat
Identification withThermal Calculations.
J. Jurka, Approaches to Identification and Analysis of Interspersed
Repetitive DNA Sequences.
O. White and T. Dunning, Compositional Properties of Exons and Introns.
E.C. Uberbacher, X. Guan, and R.J. Mural, A Practical Guide to the GRAIL
Email Server.
S. Henikoff, J. Henikoff, S. Agus, and J.C. Wallace, Searching for Homologies
to Protein Blocks by Electronic Mail.
C. Fields, Integrating Computational and Experimental Methods.
Data Management and Databases:
S. Lewis, Design Issues in Developing Laboratory Information Management
Systems.
J. Cuticchia, A Relational Database Primer for Molecular Biologists.
J.M. Cherry and S.W. Cartinhour, ACEDB: A Tool for Biological Information.
R. Overbeek and M. Price, The Integration of Curated Biological Databases.
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