Methods for automated genome-scale metabolic model reconstruction | Zendy

José P. Faria | Zendy; Miguel Rocha | Zendy; Isabel Rocha | Zendy; Christopher S. Henry | Zendy

AI Assistant Blog Pricing

Home ZAIA Blog

Open Access

Methods for automated genome-scale metabolic model reconstruction

Author(s) -

José P. Faria,

Miguel Rocha,

Isabel Rocha,

Christopher S. Henry

Publication year - 2018

Publication title -

biochemical society transactions

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 2.562

H-Index - 144

eISSN - 1470-8752

pISSN - 0300-5127

DOI - 10.1042/bst20170246

Subject(s) - toolbox , genome , computational biology , computer science , dna sequencing , sequence assembly , scale (ratio) , genomics , biology , genetics , gene , transcriptome , cartography , gene expression , programming language , geography

In the era of next-generation sequencing and ubiquitous assembly and binning of metagenomes, new putative genome sequences are being produced from isolate and microbiome samples at ever-increasing rates. Genome-scale metabolic models have enormous utility for supporting the analysis and predictive characterization of these genomes based on sequence data. As a result, tools for rapid automated reconstruction of metabolic models are becoming critically important for supporting the analysis of new genome sequences. Many tools and algorithms have now emerged to support rapid model reconstruction and analysis. Here, we are comparing and contrasting the capabilities and output of a variety of these tools, including ModelSEED, Raven Toolbox, PathwayTools, SuBliMinal Toolbox and merlin .

The content you want is available to Zendy users.

Already have an account? Click here to sign in.

Having issues? You can contact us here

Accelerating Research