PCR primer design / edited by Anton Yuryev.

By: Yuryev, Anton
Material type: TextTextSeries: Methods in molecular biology (Clifton, N.J.): v. 402.Publisher: Totowa, N.J. : Humana Press, 2007Description: 1 online resource (xiii, 431 pages) : illustrationsContent type: text Media type: computer Carrier type: online resourceISBN: 9781588297259; 158829725X; 1597455288; 9781597455282Subject(s): Polymerase chain reaction | DNA polymerases | DNA Primers | Polymerase Chain Reaction | Models, Statistical | Sequence Analysis, DNA | Statistics as Topic | Oligodeoxyribonucleotides | Sequence Analysis | Nucleic Acid Amplification Techniques | DNA Probes | Models, Theoretical | Oligonucleotides | Genetic Techniques | Epidemiologic Methods | Health Care Evaluation Mechanisms | Nucleic Acid Probes | Investigative Techniques | Polynucleotides | Analytical, Diagnostic and Therapeutic Techniques and Equipment | Molecular Probes | Quality of Health Care | Public Health | Laboratory Chemicals | Health Care Quality, Access, and Evaluation | Environment and Public Health | Nucleotides | Delivery of Health Care | Nucleic Acids, Nucleotides, and Nucleosides | Specialty Uses of Chemicals | Chemical Actions and Uses | Chemicals and Drugs | Polymerase chain reaction | DNA polymerases | DNA polymerases | Polymerase chain reaction | Animal Biochemistry | Human Anatomy & Physiology | Health & Biological SciencesGenre/Form: Electronic books. Additional physical formats: PCR primer designDDC classification: 572.86 LOC classification: QP606.D46 | .Y98 2007Other classification: Q783 Online resources: Click here to access online
Contents:
Physical principles and visual-OMP software for optimal PCR design / J. SantaLucia, Jr. -- OLIGO 7 primer analysis software / W. Rychlik -- Selection for 3'-end triplets for polymerase chain reaction primers / K. Onodera -- The reference point method in primer design / T. Kampke -- PCR primer design using statistical modeling / A. Yuryev -- Developing a statistical model for primer design / J. Huang and A. Yuryev -- Gst-prime: An algorithm for genome-wide primer design / D. Leister and C. Varotto -- Genome-scale probe and primer design with primegens / G.P. Srivastava and D. Xu -- SNPbox: Web-based high-throughput primer design with an eye for repetitive sequences / S. Weckx [and others] -- Fast masking of repeated primer binding sites in eukaryotic genomes / R. Andreson, L. Kaplinski and M. Remm -- Degenerate primer design: Theoretical analysis and the hyden program / C. Linhart and R. Shamir -- An iterative method for selecting degenerate multiplex PCR primers / R. Souvenir [and others] -- Primer design for multiplexed genotyping / L. Kaderali -- Multiplx: Automatic grouping and evaluation of PCR primers / L. Kaplinski and M. Remm -- Multiprimer: A system for microarray PCR primer design / R. Fernandes and S. Skiena -- Modified oligonucleotides as tools for allele-specific amplification / M. Strerath [and others] -- AlleleID: A pathogen detection and identification system / A. Apte and S. Singh -- Designing primers for whole genome PCR scanning using the software package GenoFrag: A software package for the design of primers dedicated to whole-genome scanning by LR-PCR / N. Ben Zakour and Y. Le Loir -- Designing PCR primer for DNA methylation mapping / L.C. Li -- Bisearch: EPCR tool for native or bisulfite-treated genomic template / T. Aranyi and G.E. Tusnady -- Graphical design of primers with perlprimer / O. Marshall -- GST-PRIME: an algorithm for genome-wide primer design / D. Leister and C. Varotto -- Genome-scale probe and primer design with PRIMEGENS / G.P. Srivastava and D. Xu.
Summary: In the past decade, molecular biology has been transformed from the art of cloning a single gene to a statistical science measuring and calculating properties of entire genomes. New high-throughput methods have been developed for genome sequencing and studying the cell at different systematic levels such as transcriptome, proteome, metabolome and other -omes. At the heart of most high-throughput methods is the technique of polymerase chain reaction (PCR). PCR Primer Design focuses on primer design, which is critical to both the efficiency and the accuracy of the PCR. With intricate descriptions of basic approaches as well as specialized methods, this volume is an exceptional reference for all those involved in studying the genome. In PCR Primer Design, authors describe basic approaches for PCR primer design in addition to specialized methods. These state-of-the-art methods can be used for both genome-scale experiments and for small-scale individual PCR amplifications. This volume will be useful for organizations performing whole genome studies, companies designing instruments that utilize PCR, and individual scientists - geneticists, molecular biologists, molecular geneticists, and more - who routinely use PCR in their research.
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Title from title screen (viewed Nov. 20, 2007).

Includes bibliographical references and index.

Physical principles and visual-OMP software for optimal PCR design / J. SantaLucia, Jr. -- OLIGO 7 primer analysis software / W. Rychlik -- Selection for 3'-end triplets for polymerase chain reaction primers / K. Onodera -- The reference point method in primer design / T. Kampke -- PCR primer design using statistical modeling / A. Yuryev -- Developing a statistical model for primer design / J. Huang and A. Yuryev -- Gst-prime: An algorithm for genome-wide primer design / D. Leister and C. Varotto -- Genome-scale probe and primer design with primegens / G.P. Srivastava and D. Xu -- SNPbox: Web-based high-throughput primer design with an eye for repetitive sequences / S. Weckx [and others] -- Fast masking of repeated primer binding sites in eukaryotic genomes / R. Andreson, L. Kaplinski and M. Remm -- Degenerate primer design: Theoretical analysis and the hyden program / C. Linhart and R. Shamir -- An iterative method for selecting degenerate multiplex PCR primers / R. Souvenir [and others] -- Primer design for multiplexed genotyping / L. Kaderali -- Multiplx: Automatic grouping and evaluation of PCR primers / L. Kaplinski and M. Remm -- Multiprimer: A system for microarray PCR primer design / R. Fernandes and S. Skiena -- Modified oligonucleotides as tools for allele-specific amplification / M. Strerath [and others] -- AlleleID: A pathogen detection and identification system / A. Apte and S. Singh -- Designing primers for whole genome PCR scanning using the software package GenoFrag: A software package for the design of primers dedicated to whole-genome scanning by LR-PCR / N. Ben Zakour and Y. Le Loir -- Designing PCR primer for DNA methylation mapping / L.C. Li -- Bisearch: EPCR tool for native or bisulfite-treated genomic template / T. Aranyi and G.E. Tusnady -- Graphical design of primers with perlprimer / O. Marshall -- GST-PRIME: an algorithm for genome-wide primer design / D. Leister and C. Varotto -- Genome-scale probe and primer design with PRIMEGENS / G.P. Srivastava and D. Xu.

In the past decade, molecular biology has been transformed from the art of cloning a single gene to a statistical science measuring and calculating properties of entire genomes. New high-throughput methods have been developed for genome sequencing and studying the cell at different systematic levels such as transcriptome, proteome, metabolome and other -omes. At the heart of most high-throughput methods is the technique of polymerase chain reaction (PCR). PCR Primer Design focuses on primer design, which is critical to both the efficiency and the accuracy of the PCR. With intricate descriptions of basic approaches as well as specialized methods, this volume is an exceptional reference for all those involved in studying the genome. In PCR Primer Design, authors describe basic approaches for PCR primer design in addition to specialized methods. These state-of-the-art methods can be used for both genome-scale experiments and for small-scale individual PCR amplifications. This volume will be useful for organizations performing whole genome studies, companies designing instruments that utilize PCR, and individual scientists - geneticists, molecular biologists, molecular geneticists, and more - who routinely use PCR in their research.

English.

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