05609cam a2200601Mi 4500 ocn773564828 OCoLC 20171115112138.0 m o d cr |n|---||||| 120123s2011 nju ob 000 0 eng d 9783527644582 (electronic bk.) 352764458X (electronic bk.) 9783527644773 (electronic bk.) 3527644776 (electronic bk.) AU@ 000048852576 DEBSZ 431074321 NZ1 15922069 DEBBG BV043394030 (OCoLC)773564828 (OCoLC)784138844 10.1002/9783527644582 Wiley InterScience http://www3.interscience.wiley.com EBLCP eng pn EBLCP OCLCQ UIU N$T DG1 YDXCP OCLCQ OHI OCLCF UKDOC OCLCQ DEBSZ OCLCQ MAIN QP624.5.D726 .H889 2011 SCI 029000 bisacsh 572.8633 Tag-based next generation sequencing / edited by Matthias Harbers and Günter Kahl. [electronic resource] Hoboken : John Wiley & Sons, 2011. 1 online resource (609 pages) text txt rdacontent computer c rdamedia online resource cr rdacarrier Tag-based Next Generation Sequencing; Contents; Preface; List of Contributors; Part One: Tag-Based Nucleic Acid Analysis; 1 DeepSuperSAGE: High-Throughput Transcriptome Sequencing with Now- and Next-Generation Sequencing Technologies; 1.1 Introduction; 1.2 Overview of the Protocols; 1.2.1 Principle of the SuperSAGE Method; 1.2.2 Power of the SuperSAGE Tag; 1.2.3 Development of DeepSuperSAGE; 1.2.4 Ditag-Based DeepSuperSAGE (for 454 Pyrosequencing); 1.2.5 Single-Tag-Based DeepSuperSAGE (HT-SuperSAGE); 1.3 Methods and Protocols; 1.3.1 Linker or Adapter Preparation; 1.3.2 RNA Samples. 1.3.3 cDNA Synthesis and NlaIII Digestion; 1.3.4 Tag Extraction from cDNA; 1.3.5 Tag Extraction from cDNA; 1.3.6 Purification of Linker-Tag Fragments; 1.3.7 Ditag or Adapter-Tag Formation and Amplification; 1.3.8 Preparation of Templates for Sequencing; 1.4 Applications; 1.4.1 Applications of DeepSuperSAGE in Combination with 454 Pyrosequencing; 1.4.2 Practical Analysis of HT-SuperSAGE; 1.5 Perspectives; References; 2 DeepCAGE: Genome-Wide Mapping of Transcription Start Sites; 2.1 Introduction; 2.2 What is CAGE?; 2.3 Why CAGE?; 2.4 Methods and Protocols; 2.4.1 Key Reagents and Consumables. 2.4.2 Precautions; 2.4.3 RNA Samples Used for DeepCAGE Library Preparation; 2.4.4 DeepCAGE Library Preparation; 2.5 Applications; 2.6 Perspectives; References; 3 Definition of Promotome-Transcriptome Architecture Using CAGEscan; 3.1 Introduction; 3.2 What is CAGEscan?; 3.3 Why CAGEscan?; 3.4 Methods and Protocols; 3.4.1 Key Reagents and Consumables; 3.4.2 Precautions; 3.4.3 RNA Samples Used for CAGEscan Library Preparation; 3.4.4 Considerations on Pooling CAGEscan Libraries; 3.4.5 CAGEscan Library Preparation; 3.5 Applications and Perspectives; References. 4 RACE: New Applications of an Old Method to Connect Exons; 4.1 Introduction; 4.2 Deep-RACE; 4.2.1 Choice of the Sequencer; 4.2.2 Validation of Promoter Studies; 4.2.3 Other Applications of Deep-RACE; 4.2.4 Limitations of Deep-RACE; 4.3 Methods Outline; 4.3.1 Primer Design; 4.3.2 Molecular Biology of Deep-RACE Library Preparation; 4.3.3 Sequencing of Deep-RACE Libraries; 4.3.4 Analysis; 4.4 Perspectives; References; 5 RNA-PET: Full-Length Transcript Analysis Using 5'- and 3'-Paired-End Tag Next-Generation Sequencing; 5.1 Introduction; 5.2 Methods and Protocols. 5.2.1 Key Reagents and Consumables; 5.2.2 Protocol; 5.3 Applications; 5.3.1 PET Sequencing with SOLiD; 5.3.2 Mapping of the PETs; 5.3.3 PET Clustering, Annotation, and Genome Browser Visualization; 5.4 Perspectives; References; 6 Stranded RNA-Seq: Strand-Specific Shotgun Sequencing of RNA; 6.1 Introduction; 6.1.1 Before Starting; 6.2 Methods and Protocols; 6.2.1 Preface; 6.2.2 Materials and Consumables; 6.2.3 Protocol; 6.3 Bioinformatic Considerations; 6.4 Applications; 6.5 Perspectives; References. 7 Differential RNA Sequencing (dRNA-Seq): Deep-Sequencing-Based Analysis of Primary Transcriptomes. Tag-based approaches were originally designed to increase the throughput of capillary sequencing, where concatemers of short sequences were first used in expression profiling. New Next Generation Sequencing methods largely extended the use of tag-based approaches as the tag lengths perfectly match with the short read length of highly parallel sequencing reactions. Tag-based approaches will maintain their important role in life and biomedical science, because longer read lengths are often not required to obtain meaningful data for many applications. Whereas genome re-sequencing and de novo sequ. Print version record. DNA microarrays. Neurobiology. Oligonucleotide array sequence analysis. SCIENCE Life Sciences Genetics & Genomics. bisacsh DNA microarrays. fast (OCoLC)fst00886592 Neurobiology. fast (OCoLC)fst01036315 Electronic books. Harbers, Matthias. Kahl, Günter. Print version: Tag-based Next Generation Sequencing. Hoboken : John Wiley & Sons, ©2011 9783527328192 http://onlinelibrary.wiley.com/book/10.1002/9783527644582 Wiley Online Library ddc BK 205523 205523