Bioinformatics in Aquaculture

Zhanjiang (John) Liu 지음

Wiley-Blackwell 2017년 01월 24일 출간

작품소개

책소개

Bioinformatics derives knowledge from computer analysis of biological data. In particular, genomic and transcriptomic datasets are processed, analysed and, whenever possible, associated with experimental results from various sources, to draw structural, organizational, and functional information relevant to biology. Research in bioinformatics includes method development for storage, retrieval, and analysis of the data. Bioinformatics in Aquaculture provides the most up to date reviews of next generation sequencing technologies, their applications in aquaculture, and principles and methodologies for the analysis of genomic and transcriptomic large datasets using bioinformatic methods, algorithm, and databases. The book is unique in providing guidance for the best software packages suitable for various analysis, providing detailed examples of using bioinformatic software and command lines in the context of real world experiments. This book is a vital tool for all those working in genomics, molecular biology, biochemistry and genetics related to aquaculture, and computational and biological sciences.

목차

List of Contributors Preface Part 1: BIOINFORMATIC ANALYSIS OF GENOMIC SEQUENCES Chapter 1. Introduction to Linux and command line tools for bioinformatics Shikai Liu and Zhanjiang Liu Chapter 2. Determining sequence identities: BLAST, Phylogenetic analysis, and syntenic analyses SenGao, Zihao Yuan, Ning Li, Jiaren Zhang and Zhanjiang Liu Chapter 3. Assembly of genomic sequences generated from next generation sequencing Ning Li, Xiaozhu Wang and Zhanjiang Liu Chapter 4. Genome Annotation: Determination of the Coding Potential of the genome Ruijia Wang, LisuiBao, Shikai Liu and Zhanjiang Liu Chapter 5. Analysis of repetitive elements in the genome LisuiBao and Zhanjiang Liu Chapter 6. Analysis of duplicated genes and multi-gene families Ruijia Wang and Zhanjiang Liu Chapter 7. Dealing with complex polypoidy genomes: considerations for assembly and annotation of the common carp genome PengXu, Jiongtang Li and Xiaowen Sun Part 2: BIOINFORMATIC ANALYSIS OF TRANSCRIPTOMIC SEQUENCES Chapter 8. Assembly of RNA-Seq short reads into transcriptome sequences Jun Yao, Chen Jiang, Chao Li, QifanZeng and Zhanjiang Liu Chapter 9. Analysis of differentially expressed genes and co-expressed genes using RNA-Seq datasets Chao Li, QifanZeng, Chen Jiang, Jun Yao and Zhanjiang Liu Chapter 10. Gene ontology, enrichment analysis and pathway analysis Tao Zhou, Jun Yao and Zhanjiang Liu Chapter 11. Genetic analysis using RNA-Seq: Bulk segregant RNA-Seq (BSR-Seq) Jun Yao, Ruijia Wang and Zhanjiang Liu Chapter 12. Analysis of long non-coding RNAs (lncRNAs) Ruijia Wang, LisuiBao, Shikai Liu and Zhanjiang Liu Chapter 13. Analysis of microRNAs and their target genes Shikai Liu and Zhanjiang Liu

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저자(글) Zhanjiang (John) Liu

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