COBRA 工具包初学者指南。

A Beginner's Guide to the COBRA Toolbox.

机构信息

Biosciences and Biotechnology Division, Physical and Life Sciences Directorate, Lawrence Livermore National Laboratory, Livermore, CA, USA.

出版信息

Methods Mol Biol. 2022;2349:339-365. doi: 10.1007/978-1-0716-1585-0_15.

DOI:10.1007/978-1-0716-1585-0_15

PMID:34719002

Abstract

COBRA toolbox is one of the most popular tools for systems biology analyses using genome-scale metabolic reconstructions. The toolbox permits the use of many constraint-based analytical methods for examining characteristics of metabolism in the biosystems ranging in complexity from single cells to microbial communities and ultimately multicellular organisms. The toolbox has a number of different variants that can be used depending on a user's choice of programming language. Here, I provide a basic tutorial for beginners that plan to use the original MATLAB version of the toolbox.

摘要

COBRA 工具包是使用基因组规模代谢重建进行系统生物学分析的最流行工具之一。该工具包允许使用许多基于约束的分析方法来检查生物系统中代谢的特性，这些生物系统的复杂性从单细胞到微生物群落，最终到多细胞生物。该工具包有许多不同的变体，可根据用户选择的编程语言进行使用。在这里，我为计划使用原始 MATLAB 版本工具包的初学者提供了一个基本教程。