Computational Systems Biology: Methods and Protocols

ISBN-13: 9781493977161 / Angielski / Twarda / 2018 / 417 str.

Tao Huang

Opis

This volume introduces the reader to the latest experimental and bioinformatics methods for DNA sequencing, RNA sequencing, cell-free tumour DNA sequencing, single cell sequencing, single-cell proteomics and metabolomics.

Spis treści

1. DNA Sequencing Data Analysis

Keyi Long, Lei Cai, and Lin He

 

2. Transcriptome Sequencing: RNA-seq

Hong Zhang, Lin He, and Lei Cai

 

3. Capture Hybridization of Long-range DNA Fragments for High-throughput Sequencing

Xing Chen, Gang Ni, Kai He, Zhao-Li Ding, Gui-Mei Li, Adeniyi C. Adeola, Robert W. Murphy, Wen-Zhi Wang, and Ya-Ping Zhang

 

4. The Introduction and Clinical Application of Cell-free Tumour DNA

Jun Li, Renzhong Liu, Cuihong Huang, and Mingyan Xu

  5. Bioinformatics Analysis for Cell-free Tumor DNA Sequencing Data

Shifu Chen, Ming Liu, and Yanqing Zhou

 

6. An Overview of Genome-Wide Association Studies

Michelle Chang, Lin He, and Lei Cai

 

7. Integrative Analysis of Omics Big Data

Xiang-tian Yu, Tao Zeng

 

8. The Reconstruction and Analysis of Gene Regulatory Networks

Guangyong Zheng and Tao Huang

 

9. Differential Coexpression Network Analysis for Gene Expression Data

Bao-hong Liu

 

10. iSeq: Web-based RNA-seq Data Analysis and Visualization

Chao Zhang, Caoqi Fan, Jingbo Gan, Ping Zhu, Lei Kong, and Cheng Li

 

11. Revisit of Machine Learning Supported Biological and Biomedical Studies

Xiang-tian Yu, Lu Wang, and Tao Zeng

 

12. Identifying Interactions Between Long Non-coding RNAs and Diseases Based on Computational Methods

Wei Lan , Liyu Huang, Dehuan Lai, and Qingfeng Chen

 

13. Survey Of Computational Approaches For Prediction of DNA-binding Residues on Protein Surfaces

Yi Xiong, Xiaolei Zhu, Hao Dai, and Dong-Qing Wei

 

14. Computational Prediction of Protein O-GlcNAc Modification

Cangzhi Jia and Yun Zuo

 

15. Machine Learning Based Modeling of Drug Toxicity

Jing Lu, Dong Lu, Zunyun Fu, Mingyue Zheng, and Xiaomin Luo

 

16. Metabolomics: A High-throughput Platform for Metabolite Profile Exploration

Jing Cheng, Wenxian Lan, Guangyong Zheng, and Xianfu Gao

 

17. Single-Cell Protein Assays--A Review

Beiyuan Fan, Junbo Wang, Ying Xu, and Jian Chen

 

18. Data Analysis in Single-cell Transcriptome Sequencing

Shan Gao

 

19. Applications of Single-cell Sequencing for Multi-omics

Yungang Xu and Xiaobo Zhou

 

20. Progress on Diagnosis of Tuberculous Meningitis

Yi-yi Wang and Bing-di Xie

 

21. Insights of Acute Lymphoblastic Leukemia with Development of Genomic Investigation

Heng Xu and Yang Shu

 

Blurb

This volume introduces the reader to the latest experimental and bioinformatics methods for DNA sequencing, RNA sequencing, cell-free tumour DNA sequencing, single cell sequencing, single-cell proteomics and metabolomics. Chapters detail advanced analysis methods, such as Genome-Wide Association Studies (GWAS), machine learning, reconstruction and analysis of gene regulatory networks and differential coexpression network analysis, and gave a practical guide for how to choose and use the right algorithm or software to handle specific high throughput data or multi-omics data. 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 cutting-edge, Computational Systems Biology: Methods and Protocols aims to ensure successful results in the further study of this vital field.