Metabolic network reconstruction and modeling : methods and protocols
著者
書誌事項
Metabolic network reconstruction and modeling : methods and protocols
(Methods in molecular biology / John M. Walker, series editor, 1716)(Springer protocols)
Humana Press, c2018
大学図書館所蔵 全2件
  青森
  岩手
  宮城
  秋田
  山形
  福島
  茨城
  栃木
  群馬
  埼玉
  千葉
  東京
  神奈川
  新潟
  富山
  石川
  福井
  山梨
  長野
  岐阜
  静岡
  愛知
  三重
  滋賀
  京都
  大阪
  兵庫
  奈良
  和歌山
  鳥取
  島根
  岡山
  広島
  山口
  徳島
  香川
  愛媛
  高知
  福岡
  佐賀
  長崎
  熊本
  大分
  宮崎
  鹿児島
  沖縄
  韓国
  中国
  タイ
  イギリス
  ドイツ
  スイス
  フランス
  ベルギー
  オランダ
  スウェーデン
  ノルウェー
  アメリカ
注記
Includes bibliographical references and index
内容説明・目次
内容説明
This volume looks at the latest methodologies used to study cellular metabolism with in silico approaches. The chapters in this book are divided into 3 parts: part I discusses tools and methods used for metabolic reconstructions and basic constraint-based metabolic modeling (CBMM); Part II explores protocols for the generation of experimental data for metabolic reconstruction and modeling, including transcriptomics, proteomics, and mutant generations; and Part III cover advanced techniques for quantitative modeling of cellular metabolism, including dynamic Flux Balance Analysis and multi-objective optimization. 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.
Cutting-edge and thorough, Metabolic Network Reconstruction and Modeling: Methods and Protocols is a valuable resource for qualified investigators studying cellular metabolism, and novice researchers who want to start working with CBMM.
目次
Preface...Table of Contents...Contributing Authors...
1. Reconstructing High-Quality Large-Scale Metabolic Models with merlinOscar Dias, Miguel Rocha, Eugenio Campos Ferreira, and Isabel Rocha
2. Analyzing and Designing Cell Factories with OptFluxPaulo Vilaca, Paulo Maia, Hugo Giesteira, Isabel Rocha, and Miguel Rocha
3. The MONGOOSE Rational Arithmetic ToolboxChristopher Le and Leonid Chindelevitch
4. The FASTCORE Family: For the Fast Reconstruction of Compact Context-Specific Metabolic Networks ModelsMaria Pires Pacheco and Thomas Sauter
5. Reconstruction and Analysis of Central Metabolism in MicrobesJanaka N. Edirisinghe, Jose P. Faria, Nomi L. Harris, Benjamin H. Allen, and Christopher S. Henry
6. Using PSAMM for the Curation and Analysis of Genome-Scale Metabolic ModelsKeith Dufault-Thompson, Jon Lund Steffensen, and Ying Zhang
7. Integration of Comparative Genomics with Genome-Scale Metabolic Modeling to Investigate Strain-Specific Phenotypical DifferencesJonathan Monk and Emanuele Bosi
8. Temple-Assisted Metabolic Reconstruction and Assembly of Hybrid Bacterial ModelsTiziano Vignolini, Alessia Mengoni, and Marco Fondi
9. Integrated Host-Pathogen Metabolic ReconstructionAnu Raghunathan and Neema Jamshidi
10. Metabloic Model Reconstruction and Analysis of an Artificial Microbial EcosystemChao Ye, Nan Xu, Xiulai Chen, and Liming Liu
11. RNA Sequencing and Analysis in Microorganisms for Metabolic Network ReconstructionEva Pinatel and Clelia Peano
12. Differential Proteomics Based on 2D-Difference In-Gel Electrophoresis and Tandem Mass Spectrometry for the Elucidation of Biological Processes in Antibiotic-Producer Bacterial StrainsGiuseppe Gallo and Andrea Scaloni
13. Techniques for Large-Scale Bacterial Genome Manipulation and Characterization of the Mutants with respect to In Silico Metabolic ReconstructionsGeorge C. diCenzo and Turlough M. Finan
14. Computational Prediction of Synthetic Lethals in Genome-Scale Metabolic Models using Fast-SLKarthik Raman, Aditya Pratapa, Omkar Mohite, and Shankar Balachandran
15. Coupling Fluxes, Enzymes, and Regulation in Genome-Scale Metabolic ModelsPaul A. Jensen
16. Dynamic Flux Balance Analysis using DFBAlabJose Alberto Gomez and Paul I. Barton
17. Designing Optimized Production Hosts by Metabolic ModelingChristian Jungreuthmayer, Matthias P. Gerstl, David A. Pena Navarro, Michael Hanscho, David E. Ruckerbauer, and Jurgen Zanghellini
18. Optimization of Multi-Omic Genome-Scale Models: Methodologies, Hands-On Tutorial and PerspectivesSupreeta Vijayakumar, Max Conway, Pietro Lio, and Claudio Angione
「Nielsen BookData」 より