{"product_id":"genomics-essential-methods-hardback-9780470711576","title":"Genomics; Essential Methods (Hardback) 9780470711576","description":"\u003cfont face=\"Georgia\"\u003e\r\n\u003cp\u003e\u003cfont size=\"6\"\u003eGenomics\u003c\/font\u003e\u003cbr\u003e\r\n\u003cfont size=\"5\"\u003eEssential Methods\u003c\/font\u003e\u003c\/p\u003e\r\n\r\n\r\n\r\n\r\n\u003cp\u003e\u003cfont size=\"4\"\u003eMike Starkey (Edited by), M Starkey (Author), Ramnath Elaswarapu (Edited by)\u003c\/font\u003e\u003c\/p\u003e\r\n\r\n\u003cp\u003e\u003cfont size=\"3\"\u003e9780470711576, Wiley\u003c\/font\u003e\u003c\/p\u003e\r\n\r\n\u003cp\u003e\u003cfont size=\"3\"\u003eHardback, published 26 November 2010\u003c\/font\u003e\u003c\/p\u003e\r\n\r\n\u003cp\u003e\u003cfont size=\"3\"\u003e352 pages\u003cbr\u003e25.2 x 17.3 x 2.3 cm, 0.744 kg\u003c\/font\u003e\u003c\/p\u003e\r\n\r\n\r\n\r\n\u003cp align=\"justify\"\u003e\u003cem\u003e\u003cfont size=\"3\"\u003e \u003cbr\u003e \u003cbr\u003e\u003c\/font\u003e\u003c\/em\u003e\u003c\/p\u003e\r\n\r\n\u003cp align=\"justify\"\u003e\u003cstrong\u003e\u003cfont size=\"3\"\u003eGenomics research has made significant advances in recent years. In this book, a team of internationally-renowned researchers share the most up-to-date information in a field that has in recent years switched emphasis from gene identification to functional genomics and the characterization of genes and gene products. This volume approaches this complex subject with a broad perspective to supply the reader with a vital overview of genomics and its derivative fields, with a focus on pivotal issues such as data analysis. Expansive and current, this book is a comprehensive research guide that describes both the key new techniques and more established methods. Every chapter discusses the merits and limitations of the various approaches and then provides selected tried-and-tested protocols, as well as a plethora of good practical advice for immediate use at the bench.  \u003cp\u003e\u003cb\u003eKey features:\u003c\/b\u003e\u003c\/p\u003e \u003cul\u003e \u003cli\u003eProvides a broad introduction to current practices and techniques for lab-based research in genomics\u003c\/li\u003e \u003cli\u003eExplains clearly and precisely how to carry out selected techniques in addition to background information on the various approaches\u003c\/li\u003e \u003cli\u003eChapters are written by a leading international authorities in the field and cover both well-known and new, tried and tested, methods for working in genomics\u003c\/li\u003e \u003cli\u003eIncludes troubleshooting guide and reviews of alternative techniques\u003c\/li\u003e \u003cli\u003eAn essential laboratory manual for students and researchers at all levels\u003c\/li\u003e \u003c\/ul\u003e\u003c\/font\u003e\u003c\/strong\u003e\u003c\/p\u003e\r\n\r\n\u003cp\u003e\u003cfont size=\"3\"\u003e\u003cp\u003eList of Contributors xi\u003c\/p\u003e \u003cp\u003ePreface xv\u003c\/p\u003e \u003cp\u003e\u003cb\u003e1 High-Resolution Analysis of Genomic Copy Number Changes 1\u003cbr\u003e \u003c\/b\u003e\u003ci\u003eMario Hermsen, Jordy Coffa, Bauke Ylstra, Gerrit Meijer, Hans Morreau, Ronald van Eijk, Jan Oosting and Tom van Wezel\u003c\/i\u003e\u003c\/p\u003e \u003cp\u003e1.1 Introduction 1\u003c\/p\u003e \u003cp\u003e1.2 Methods and approaches 2\u003c\/p\u003e \u003cp\u003e1.2.1 Oligonucleotide aCGH 2\u003c\/p\u003e \u003cp\u003e1.2.2 SNP aCGH 15\u003c\/p\u003e \u003cp\u003e1.2.3 Multiple ligation-dependent probe amplification (MLPA) 19\u003c\/p\u003e \u003cp\u003e1.3 Troubleshooting 28\u003c\/p\u003e \u003cp\u003eReferences 29\u003c\/p\u003e \u003cp\u003e\u003cb\u003e2 Identification of Polymorphic Markers for Genetic Mapping 33\u003cbr\u003e \u003c\/b\u003e\u003ci\u003eDaniel C. Koboldt and Raymond D. Miller\u003c\/i\u003e\u003c\/p\u003e \u003cp\u003e2.1 Introduction 33\u003c\/p\u003e \u003cp\u003e2.2 Methods and approaches 34\u003c\/p\u003e \u003cp\u003e2.2.1 Repositories of known genetic variants 34\u003c\/p\u003e \u003cp\u003e2.2.2 Targeted resequencing for variant discovery 35\u003c\/p\u003e \u003cp\u003e2.3 Troubleshooting 45\u003c\/p\u003e \u003cp\u003e2.3.1 Primer design 45\u003c\/p\u003e \u003cp\u003e2.3.2 PCR amplification 45\u003c\/p\u003e \u003cp\u003e2.3.3 Working with binary trace files 46\u003c\/p\u003e \u003cp\u003e2.3.4 Phred\/Phrap 46\u003c\/p\u003e \u003cp\u003eReferences 46\u003c\/p\u003e \u003cp\u003e\u003cb\u003e3 Genotyping and LOH Analysis on Archival Tissue Using SNP Arrays 49\u003cbr\u003e \u003c\/b\u003e\u003ci\u003eRonald van Eijk, Anneke Middeldorp, Esther H. Lips, Marjo van Puijenbroek, Hans Morreau, Jan Oosting and Tom van Wezel\u003c\/i\u003e\u003c\/p\u003e \u003cp\u003e3.1 Introduction 49\u003c\/p\u003e \u003cp\u003e3.2 Methods and approaches 50\u003c\/p\u003e \u003cp\u003e3.2.1 Arrays 50\u003c\/p\u003e \u003cp\u003e3.2.2 Genotyping 50\u003c\/p\u003e \u003cp\u003e3.2.3 Linkage and association analysis 51\u003c\/p\u003e \u003cp\u003e3.2.4 Formalin-fixed, paraffin-embedded tissue 51\u003c\/p\u003e \u003cp\u003e3.2.5 Loss of heterozygosity 58\u003c\/p\u003e \u003cp\u003e3.3 Troubleshooting 63\u003c\/p\u003e \u003cp\u003eReferences 64\u003c\/p\u003e \u003cp\u003e\u003cb\u003e4 Genetic Mapping of Complex Traits 67\u003cbr\u003e \u003c\/b\u003e\u003ci\u003eNancy L. Saccone\u003c\/i\u003e\u003c\/p\u003e \u003cp\u003e4.1 Introduction 67\u003c\/p\u003e \u003cp\u003e4.2 Methods and approaches 68\u003c\/p\u003e \u003cp\u003e4.2.1 Association methods: unrelated case–control samples 68\u003c\/p\u003e \u003cp\u003e4.2.2 Association methods: family-based samples 81\u003c\/p\u003e \u003cp\u003e4.2.3 Linkage methods: parametric LOD score analysis 82\u003c\/p\u003e \u003cp\u003e4.2.4 Linkage methods: non-parametric methods 83\u003c\/p\u003e \u003cp\u003e4.2.5 Summary and conclusions 84\u003c\/p\u003e \u003cp\u003e4.3 Troubleshooting 84\u003c\/p\u003e \u003cp\u003e4.3.1 Combining datasets 84\u003c\/p\u003e \u003cp\u003eReferences 85\u003c\/p\u003e \u003cp\u003e\u003cb\u003e5 RNA Amplification Strategies: Toward Single-Cell Sensitivity 91\u003cbr\u003e \u003c\/b\u003e\u003ci\u003eNatalie Stickle, Norman N. Iscove, Carl Virtanen, Mary Barbara, Carolyn Modi, Toni Di Berardino, Ellen Greenblatt, Ted Brown and Neil Winegarden\u003c\/i\u003e\u003c\/p\u003e \u003cp\u003e5.1 Introduction 91\u003c\/p\u003e \u003cp\u003e5.1.1 The need for amplification 91\u003c\/p\u003e \u003cp\u003e5.1.2 Amplification approaches 93\u003c\/p\u003e \u003cp\u003e5.2 Methods and approaches 100\u003c\/p\u003e \u003cp\u003e5.2.1 T7 RNA polymerase-based in vitro transcription 100\u003c\/p\u003e \u003cp\u003e5.2.2 Global-RT-PCR 107\u003c\/p\u003e \u003cp\u003e5.3 Troubleshooting 115\u003c\/p\u003e \u003cp\u003eReferences 116\u003c\/p\u003e \u003cp\u003e\u003cb\u003e6 Real-Time Quantitative RT-PCR for mRNA Profiling 121\u003cbr\u003e \u003c\/b\u003e\u003ci\u003eStephen A. Bustin and Tania Nolan\u003c\/i\u003e\u003c\/p\u003e \u003cp\u003e6.1 Introduction 121\u003c\/p\u003e \u003cp\u003e6.2 Methods and approaches 122\u003c\/p\u003e \u003cp\u003e6.2.1 Sample selection 122\u003c\/p\u003e \u003cp\u003e6.2.2 RNA extraction 123\u003c\/p\u003e \u003cp\u003e6.2.3 Clinical and environmental samples 127\u003c\/p\u003e \u003cp\u003e6.2.4 Reverse transcription 130\u003c\/p\u003e \u003cp\u003e6.2.5 qPCR using SYBR green I dye detection 134\u003c\/p\u003e \u003cp\u003e6.2.6 qPCR using labeled oligonucleotide probe detection 137\u003c\/p\u003e \u003cp\u003e6.2.7 Quantification methods 140\u003c\/p\u003e \u003cp\u003e6.2.8 RT-qPCR standardization 143\u003c\/p\u003e \u003cp\u003e6.3 Troubleshooting 144\u003c\/p\u003e \u003cp\u003e6.3.1 No\/Poor\/Late amplification 144\u003c\/p\u003e \u003cp\u003e6.3.2 No-template, negative control yields an amplification product 147\u003c\/p\u003e \u003cp\u003e6.3.3 No reverse transcriptase control yields an amplification product 148\u003c\/p\u003e \u003cp\u003e6.3.4 Primer dimers formed 148\u003c\/p\u003e \u003cp\u003e6.3.5 Multiple peaks in SYBR green I melt curve 148\u003c\/p\u003e \u003cp\u003e6.3.6 Standard curve is unreliable (correlation coefficient \u0026lt;0.98 over at least 5 log dilution and with samples repeated in triplicate) 149\u003c\/p\u003e \u003cp\u003e6.3.7 Erratic amplification plots\/high well-to-well variation 149\u003c\/p\u003e \u003cp\u003eReferences 149\u003c\/p\u003e \u003cp\u003e\u003cb\u003e7 Gene Expression in Mammalian Cells 155\u003cbr\u003e \u003c\/b\u003e\u003ci\u003eFélix Recillas-Targa, Georgina Guerrero, Martín Escamilla-del-Arenal and Héctor Rincón-Arano\u003c\/i\u003e\u003c\/p\u003e \u003cp\u003e7.1 Introduction 155\u003c\/p\u003e \u003cp\u003e7.1.1 Artificial chromosomes and transgenesis 157\u003c\/p\u003e \u003cp\u003e7.1.2 Gene transfer and expression problems 157\u003c\/p\u003e \u003cp\u003e7.1.3 Position effects and chromatin 157\u003c\/p\u003e \u003cp\u003e7.1.4 Tissue-specific regulatory elements 158\u003c\/p\u003e \u003cp\u003e7.1.5 Sustained expression and chromatin insulators 158\u003c\/p\u003e \u003cp\u003e7.2 Methods and approaches 159\u003c\/p\u003e \u003cp\u003e7.2.1 Site-specific chromosomal integration in mammalian cells 159\u003c\/p\u003e \u003cp\u003e7.2.2 Plasmid requirement 161\u003c\/p\u003e \u003cp\u003e7.2.3 Chromosome transfer 163\u003c\/p\u003e \u003cp\u003e7.3 Troubleshooting 169\u003c\/p\u003e \u003cp\u003eAcknowledgments 169\u003c\/p\u003e \u003cp\u003eReferences 170\u003c\/p\u003e \u003cp\u003e\u003cb\u003e8 Using Yeast Two-Hybrid Methods to Investigate Large Numbers of Binary Protein Interactions 173\u003cbr\u003e \u003c\/b\u003e\u003ci\u003ePanagoula Charalabous, Jonathan Woodsmith and Christopher M. Sanderson\u003c\/i\u003e\u003c\/p\u003e \u003cp\u003e8.1 Introduction 173\u003c\/p\u003e \u003cp\u003e8.2 Methods and approaches 174\u003c\/p\u003e \u003cp\u003e8.2.1 Producing large numbers of bait or prey clones 174\u003c\/p\u003e \u003cp\u003e8.2.2 Generating recombination-compatible inserts for gap repair cloning 177\u003c\/p\u003e \u003cp\u003e8.2.3 Performing gap repair reactions 179\u003c\/p\u003e \u003cp\u003e8.2.4 Identifying positive transformants 181\u003c\/p\u003e \u003cp\u003e8.2.5 Yeast colony PCR 181\u003c\/p\u003e \u003cp\u003e8.2.6 Bait and prey auto-activation tests 183\u003c\/p\u003e \u003cp\u003e8.2.7 Targeted ‘matrix’-style Y2H screens 184\u003c\/p\u003e \u003cp\u003e8.3 Troubleshooting 188\u003c\/p\u003e \u003cp\u003eReferences 189\u003c\/p\u003e \u003cp\u003e\u003cb\u003e9 Prediction of Protein Function 191\u003cbr\u003e \u003c\/b\u003e\u003ci\u003eHonNianChua\u003c\/i\u003e\u003c\/p\u003e \u003cp\u003e9.1 Introduction 191\u003c\/p\u003e \u003cp\u003e9.2 Methods and approaches 191\u003c\/p\u003e \u003cp\u003e9.2.1 Annotation schemes 192\u003c\/p\u003e \u003cp\u003e9.2.2 Working with multiple protein identifier systems 195\u003c\/p\u003e \u003cp\u003e9.2.3 Sequence homology 196\u003c\/p\u003e \u003cp\u003e9.2.4 Phylogenetic relationships 199\u003c\/p\u003e \u003cp\u003e9.2.5 Sequence-derived functional and chemical properties 202\u003c\/p\u003e \u003cp\u003e9.2.6 Protein–protein interaction maps 203\u003c\/p\u003e \u003cp\u003e9.3 Troubleshooting 205\u003c\/p\u003e \u003cp\u003eReferences 205\u003c\/p\u003e \u003cp\u003e\u003cb\u003e10 Elucidating Gene Function through Use of Genetically Engineered Mice 211\u003cbr\u003e \u003c\/b\u003e\u003ci\u003eMary P. Heyer, Cátia Feliciano, João Peca and Guoping Feng\u003c\/i\u003e\u003c\/p\u003e \u003cp\u003e10.1 Introduction 211\u003c\/p\u003e \u003cp\u003e10.2 Methods and approaches 212\u003c\/p\u003e \u003cp\u003e10.2.1 Principles of targeted gene deletion in mice 212\u003c\/p\u003e \u003cp\u003e10.2.2 Strategies for gene targeting in mice 215\u003c\/p\u003e \u003cp\u003e10.2.3 Retrieval of DNA from BAC by recombineering 217\u003c\/p\u003e \u003cp\u003e10.2.4 ES and MEF cell culture 222\u003c\/p\u003e \u003cp\u003e10.2.5 Mating of chimeras and downstream applications 244\u003c\/p\u003e \u003cp\u003e10.3 Troubleshooting 245\u003c\/p\u003e \u003cp\u003eReferences 246\u003c\/p\u003e \u003cp\u003e\u003cb\u003e11 Delivery Systems for Gene Transfer 249\u003cbr\u003e \u003c\/b\u003e\u003ci\u003eCharlotte Lawson and Louise Collins\u003c\/i\u003e\u003c\/p\u003e \u003cp\u003e11.1 Introduction 249\u003c\/p\u003e \u003cp\u003e11.2 Methods and approaches 250\u003c\/p\u003e \u003cp\u003e11.2.1 The ideal gene therapy vector 250\u003c\/p\u003e \u003cp\u003e11.2.2 Plasmid design 251\u003c\/p\u003e \u003cp\u003e11.2.3 Viral vectors 252\u003c\/p\u003e \u003cp\u003e11.2.4 Non-viral DNA vectors 263\u003c\/p\u003e \u003cp\u003e11.2.5 Assessing the physical properties of a non-viral vector 267\u003c\/p\u003e \u003cp\u003e11.2.6 Optimizing in vitro gene delivery 268\u003c\/p\u003e \u003cp\u003e11.2.7 Optimization strategies 271\u003c\/p\u003e \u003cp\u003e11.2.8 Reporter genes and assays 271\u003c\/p\u003e \u003cp\u003e11.2.9 Cytotoxicity assays 272\u003c\/p\u003e \u003cp\u003e11.2.10 Future steps for non-viral vector development 272\u003c\/p\u003e \u003cp\u003e11.3 Troubleshooting 273\u003c\/p\u003e \u003cp\u003e11.3.1 General points 273\u003c\/p\u003e \u003cp\u003eReferences 274\u003c\/p\u003e \u003cp\u003e\u003cb\u003e12 Gene Therapy Strategies: Constructing an AAV Trojan Horse 283\u003cbr\u003e \u003c\/b\u003e\u003ci\u003eM. Ian Phillips, Edilamar M. de Oliveira, Leping Shen, Yao Liang Tang and Keping Qian\u003c\/i\u003e\u003c\/p\u003e \u003cp\u003e12.1 Introduction 283\u003c\/p\u003e \u003cp\u003e12.1.1 General strategies for gene therapy: Basic methods 284\u003c\/p\u003e \u003cp\u003e12.1.2 Gene therapy strategies: Delivering genes to cells 287\u003c\/p\u003e \u003cp\u003e12.1.3 Viral delivery 288\u003c\/p\u003e \u003cp\u003e12.1.4 Production, purification and titration of recombinant adeno-associated virus (rAAV) 291\u003c\/p\u003e \u003cp\u003e12.2 Methods and approaches 292\u003c\/p\u003e \u003cp\u003e12.3 Troubleshooting 303\u003c\/p\u003e \u003cp\u003eReferences 304\u003c\/p\u003e \u003cp\u003e\u003cb\u003e13 An Introduction to Proteomics Technologies for the Genomics Scientist 307\u003cbr\u003e \u003c\/b\u003e\u003ci\u003eDavid B. Friedman\u003c\/i\u003e\u003c\/p\u003e \u003cp\u003e13.1 Introduction 307\u003c\/p\u003e \u003cp\u003e13.2 Methods and approaches 309\u003c\/p\u003e \u003cp\u003e13.2.1 Gel-based strategies 309\u003c\/p\u003e \u003cp\u003e13.2.2 LC\/MS strategies 312\u003c\/p\u003e \u003cp\u003e13.2.3 MALDI imaging and profiling 314\u003c\/p\u003e \u003cp\u003e13.3 Troubleshooting 316\u003c\/p\u003e \u003cp\u003e13.3.1 Number of resolved features and modifications 316\u003c\/p\u003e \u003cp\u003e13.3.2 Sample consumption, protein identification and depth of coverage 317\u003c\/p\u003e \u003cp\u003e13.3.3 Statistical power 317\u003c\/p\u003e \u003cp\u003e13.3.4 Conclusions 318\u003c\/p\u003e \u003cp\u003eReferences 318\u003c\/p\u003e \u003cp\u003eIndex 325\u003c\/p\u003e\u003c\/font\u003e\u003c\/p\u003e\r\n\r\n\u003cp\u003e\u003cfont size=\"3\"\u003eSubject Areas: Biology, life sciences [\u003ca title=\"See our other books on Biology, life sciences\" href=\"https:\/\/freshlyprintedbooks.co.uk\/search?q=%22Biology,%20life%20sciences%20%5BPS%5D%22\"\u003ePS\u003c\/a\u003e]\u003c\/font\u003e\u003c\/p\u003e\r\n\r\n\r\n\u003c\/font\u003e","brand":"Wiley","offers":[{"title":"Brand New","offer_id":52278023749912,"sku":"9780470711576","price":66.19,"currency_code":"GBP","in_stock":true}],"thumbnail_url":"\/\/cdn.shopify.com\/s\/files\/1\/0730\/2037\/5320\/files\/9780470711576.jpg?v=1781456109","url":"https:\/\/freshlyprintedbooks.co.uk\/products\/genomics-essential-methods-hardback-9780470711576","provider":"Freshly Printed Books","version":"1.0","type":"link"}