Gemtractor: Extracting Views Into Genome-Scale Metabolic Models

Gemtractor: Extracting Views Into Genome-Scale Metabolic Models Publisher Pubmed

Scharm M¹ ; Wolkenhauer O^{1, 2} ; Jalili M³ ; Salehzadehyazdi A¹

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1. Department of Systems Biology and Bioinformatics, University of Rostock, Rostock, 18051, Germany
2. Stellenbosch Institute for Advanced Study, Wallenberg Research Centre, Stellenbosch University, Stellenbosch, 7602, South Africa
3. Hematology Oncology and SCT Research Center, Tehran University of Medical Sciences, Tehran, 1416753955, Iran

Source: Bioinformatics Published:2020

Abstract

Computational metabolic models typically encode for graphs of species, reactions and enzymes. Comparing genome-scale models through topological analysis of multipartite graphs is challenging. However, in many practical cases it is not necessary to compare the full networks. The GEMtractor is a web-based tool to trim models encoded in SBML. It can be used to extract subnetworks, for example focusing on reaction-and enzyme-centric views into the model. © 2020 The Author(s). Published by Oxford University Press. All rights reserved.

Style	Citing Format
MLA	Scharm M, et al.. "Gemtractor: Extracting Views Into Genome-Scale Metabolic Models." Bioinformatics, vol. 36, no. 10, 2020, pp. 3281-3282.
APA	Scharm M, Wolkenhauer O, Jalili M, Salehzadehyazdi A (2020). Gemtractor: Extracting Views Into Genome-Scale Metabolic Models. Bioinformatics, 36(10), 3281-3282.
Chicago	Scharm M, Wolkenhauer O, Jalili M, Salehzadehyazdi A. "Gemtractor: Extracting Views Into Genome-Scale Metabolic Models." Bioinformatics 36, no. 10 (2020): 3281-3282.
Harvard	Scharm M et al. (2020) 'Gemtractor: Extracting Views Into Genome-Scale Metabolic Models', Bioinformatics, 36(10), pp. 3281-3282.
Vancouver	Scharm M, Wolkenhauer O, Jalili M, Salehzadehyazdi A. Gemtractor: Extracting Views Into Genome-Scale Metabolic Models. Bioinformatics. 2020;36(10):3281-3282.
BibTex	@article{ author = {Scharm M and Wolkenhauer O and Jalili M and Salehzadehyazdi A}, title = {Gemtractor: Extracting Views Into Genome-Scale Metabolic Models}, journal = {Bioinformatics}, volume = {36}, number = {10}, pages = {3281-3282}, year = {2020} }
RIS	TY - JOUR AU - Scharm M AU - Wolkenhauer O AU - Jalili M AU - Salehzadehyazdi A TI - Gemtractor: Extracting Views Into Genome-Scale Metabolic Models JO - Bioinformatics VL - 36 IS - 10 SP - 3281 EP - 3282 PY - 2020 ER -

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Abstract