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标题:Strategies and Tools for Sequencing and Assembly of Plant Genomes
时间:2019-09-11 23:18:48
DOI:10.1007/978-3-319-66135-3_5
作者:D. C. Mishra;S. B. Lal;Anu Sharma;Sanjeev Kumar;Neeraj Budhlakoti
摘要:This chapter highlights strategies and tools for sequencing and assembly of plant genomes. It discusses in brief the methods of sequencing technologies (the first, second and third generations),...
大小:295 kb
页数:14 PAGES
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目录:
  • 5 Strategies and Tools for Sequencing and Assembly of Plant Genomes
    • Abstract
    • 5.1 Introduction
    • 5.2 Sequencing Technologies
      • 5.2.1 First-Generation Sequencing Methods
      • 5.2.2 Second-Generation Sequencing
      • 5.2.3 Third-Generation Sequencing
    • 5.3 Approaches of Genome Assembly
      • 5.3.1 Reference Assembly
        • 5.3.1.1 Step 1: Read Alignment
        • 5.3.1.2 Step 2: Layout Refinement
        • 5.3.1.3 Step 3: Consensus Sequence Generation
        • 5.3.1.4 Step 4: Scaffold Generation
      • 5.3.2 De Novo Assembly
        • 5.3.2.1 Approach 1: Overlap Layout Consensus (OLC)
          • Step 1: Identification of Candidate Overlap
          • Step 2: Fragment Layout Formation
          • Step 3: Consensus Sequence Generation
        • 5.3.2.2 Approach 2: De-Bruijn Graph (DBG)
        • 5.3.2.3 Approach 3: Hybrid Assembly
    • 5.4 Issues and Challenges of Plant Genome Assembly
      • 5.4.1 Computational Complexity
      • 5.4.2 Biological Complexity
      • 5.4.3 Genome Finishing
    • 5.5 Conclusion
    • References

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