Homing endonucleases : methods and protocols / edited by David R. Edgell.

Contributor(s): Edgell, David R [editor.]
Material type: TextTextSeries: Methods in molecular biology (Clifton, N.J.): v. 1123.Publisher: New York : Humana Press, [2014]Copyright date: ©2014Description: 1 online resource (x, 284 pages) : illustrations (some color)Content type: text Media type: computer Carrier type: online resourceISBN: 9781627039680; 1627039686; 1627039678; 9781627039673Subject(s): Endonucleases -- Laboratory manuals | Esterases | Publication Formats | Publication Characteristics | Hydrolases | Enzymes | Enzymes and Coenzymes | Chemicals and Drugs | Laboratory Manuals | Endonucleases | Endonucleases | biomedische wetenschappen | biomedicine | genetische modificatie | genetic engineering | humane genetica | human genetics | Medicine (General) | Geneeskunde (algemeen)Genre/Form: Laboratory Manual. | Electronic books. | Laboratory manuals. Additional physical formats: Print version:: Homing endonucleasesDDC classification: 572.8 LOC classification: QP609.E44Online resources: Click here to access online
Contents:
Homing endonucleases : from genetic anomalies to programmable genomic clippers / Marlene Belfort and Richard P. Bonocora -- Bioinformatic identification of homing endonucleases and their target sites / Eyal Privman -- PCR-based bioprospecting for homing endonucleases in fungal mitochondrial rRNA genes / Mohamed Hafez [and four others.] -- Mapping homing endonuclease cleavage sites using in vitro generated protein / Richard P. Bonocora and Marlene Belfort -- Mapping free-standing homing endonuclease promoters using 5'RLM-RACE / Ewan A. Gibb -- PCR analysis of chloroplast double-strand break (DSB) repair products induced by I-CreII in chlamydomonas and arabidopsis / Taegun Kwon [and three others] -- A two-plasmid bacterial selection system for characterization and engineering of homing endonucleases / Ning Sun and Huimin Zhao -- Rapid screening of endonuclease target site preference using a modified bacterial two-plasmid selection / Jason M. Wolfs, Benjamin P. Kleinstiver, and David R. Edgell -- A yeast-based recombination assay for homing endonuclease activity / Jean-Charles Epinat -- Rapid determination of homing endonuclease DNA binding specificity profile / Lei Zhao and Barry L. Stoddard -- Quantifying the information content of homing endonuclease target sites by single base pair profiling / Joshua I. Friedman, Hui Li, and Raymond J. Monnat, Jr. -- Homing endonuclease target site specificity defined by sequential enrichment and next-generation sequencing of highly complex target site libraries/ Hui Li and Raymond J. Monnat Jr. -- Homing endonuclease target determination Using SELEX adapted for yeast surface display / Kyle Jacoby and Andrew M. Scharenberg -- Engineering and flow-cytometric analysis of chimeric LAGLIDADG homing endonucleases from homologous I-OnuI-family enzymes / Sarah K. Baxter, Andrew M. Scharenberg, and Abigail R. Lambert -- Bioinformatics identification of coevolving residues / Russell J. Dickson and Gregory B. Gloor -- Identification and analysis of genomic homing endonuclease target sites / Stefan Pellenz and Raymond J. Monnat Jr. -- Redesigning the specificity of protein-DNA interactions with Rosetta / Summer Thyme and David Baker.
Summary: Homing Endonucleases: Methods and Protocols aims at providing molecular biologists with a comprehensive resource to identify and characterize homing endonucleases from genomic sequence, to deduce the biological basis of binding and cleavage specificity, as well as to provide protocols to redesign endonuclease target specificity for genome-editing applications. Engineering of designer homing endonucleases has set the stage for genome editing of complex eukaryotic genomes with a broad range of potential applications including targeted gene knockouts in model organisms and gene therapy in humans, making this book a valuable resource for future research. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls. Authoritative and practical, Homing Endonucleases: Methods and Protocols serves as a key reference for all labs studying site-specific DNA endonucleases.
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Includes bibliographical references and index.

Homing endonucleases : from genetic anomalies to programmable genomic clippers / Marlene Belfort and Richard P. Bonocora -- Bioinformatic identification of homing endonucleases and their target sites / Eyal Privman -- PCR-based bioprospecting for homing endonucleases in fungal mitochondrial rRNA genes / Mohamed Hafez [and four others.] -- Mapping homing endonuclease cleavage sites using in vitro generated protein / Richard P. Bonocora and Marlene Belfort -- Mapping free-standing homing endonuclease promoters using 5'RLM-RACE / Ewan A. Gibb -- PCR analysis of chloroplast double-strand break (DSB) repair products induced by I-CreII in chlamydomonas and arabidopsis / Taegun Kwon [and three others] -- A two-plasmid bacterial selection system for characterization and engineering of homing endonucleases / Ning Sun and Huimin Zhao -- Rapid screening of endonuclease target site preference using a modified bacterial two-plasmid selection / Jason M. Wolfs, Benjamin P. Kleinstiver, and David R. Edgell -- A yeast-based recombination assay for homing endonuclease activity / Jean-Charles Epinat -- Rapid determination of homing endonuclease DNA binding specificity profile / Lei Zhao and Barry L. Stoddard -- Quantifying the information content of homing endonuclease target sites by single base pair profiling / Joshua I. Friedman, Hui Li, and Raymond J. Monnat, Jr. -- Homing endonuclease target site specificity defined by sequential enrichment and next-generation sequencing of highly complex target site libraries/ Hui Li and Raymond J. Monnat Jr. -- Homing endonuclease target determination Using SELEX adapted for yeast surface display / Kyle Jacoby and Andrew M. Scharenberg -- Engineering and flow-cytometric analysis of chimeric LAGLIDADG homing endonucleases from homologous I-OnuI-family enzymes / Sarah K. Baxter, Andrew M. Scharenberg, and Abigail R. Lambert -- Bioinformatics identification of coevolving residues / Russell J. Dickson and Gregory B. Gloor -- Identification and analysis of genomic homing endonuclease target sites / Stefan Pellenz and Raymond J. Monnat Jr. -- Redesigning the specificity of protein-DNA interactions with Rosetta / Summer Thyme and David Baker.

Homing Endonucleases: Methods and Protocols aims at providing molecular biologists with a comprehensive resource to identify and characterize homing endonucleases from genomic sequence, to deduce the biological basis of binding and cleavage specificity, as well as to provide protocols to redesign endonuclease target specificity for genome-editing applications. Engineering of designer homing endonucleases has set the stage for genome editing of complex eukaryotic genomes with a broad range of potential applications including targeted gene knockouts in model organisms and gene therapy in humans, making this book a valuable resource for future research. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls. Authoritative and practical, Homing Endonucleases: Methods and Protocols serves as a key reference for all labs studying site-specific DNA endonucleases.

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