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Metabolic Network Reconstruction and Modeling

Overview of attention for book
Cover of 'Metabolic Network Reconstruction and Modeling'

Table of Contents

  1. Altmetric Badge
    Book Overview
  2. Altmetric Badge
    Chapter 1 Reconstructing High-Quality Large-Scale Metabolic Models with merlin
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    Chapter 2 Analyzing and Designing Cell Factories with OptFlux
  4. Altmetric Badge
    Chapter 3 The MONGOOSE Rational Arithmetic Toolbox
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    Chapter 4 The FASTCORE Family: For the Fast Reconstruction of Compact Context-Specific Metabolic Networks Models
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    Chapter 5 Reconstruction and Analysis of Central Metabolism in Microbes
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    Chapter 6 Using PSAMM for the Curation and Analysis of Genome-Scale Metabolic Models
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    Chapter 7 Integration of Comparative Genomics with Genome-Scale Metabolic Modeling to Investigate Strain-Specific Phenotypical Differences
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    Chapter 8 Template-Assisted Metabolic Reconstruction and Assembly of Hybrid Bacterial Models
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    Chapter 9 Integrated Host-Pathogen Metabolic Reconstructions
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    Chapter 10 Metabolic Model Reconstruction and Analysis of an Artificial Microbial Ecosystem
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    Chapter 11 RNA Sequencing and Analysis in Microorganisms for Metabolic Network Reconstruction
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    Chapter 12 Differential Proteomics Based on 2D-Difference In-Gel Electrophoresis and Tandem Mass Spectrometry for the Elucidation of Biological Processes in Antibiotic-Producer Bacterial Strains
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    Chapter 13 Techniques for Large-Scale Bacterial Genome Manipulation and Characterization of the Mutants with Respect to In Silico Metabolic Reconstructions
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    Chapter 14 Computational Prediction of Synthetic Lethals in Genome-Scale Metabolic Models Using Fast-SL
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    Chapter 15 Coupling Fluxes, Enzymes, and Regulation in Genome-Scale Metabolic Models
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    Chapter 16 Dynamic Flux Balance Analysis Using DFBAlab
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    Chapter 17 Designing Optimized Production Hosts by Metabolic Modeling
  19. Altmetric Badge
    Chapter 18 Optimization of Multi-Omic Genome-Scale Models: Methodologies, Hands-on Tutorial, and Perspectives
Attention for Chapter 2: Analyzing and Designing Cell Factories with OptFlux
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About this Attention Score

  • In the top 25% of all research outputs scored by Altmetric
  • Good Attention Score compared to outputs of the same age (76th percentile)
  • High Attention Score compared to outputs of the same age and source (91st percentile)

Mentioned by

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9 X users

Citations

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4 Dimensions

Readers on

mendeley
60 Mendeley
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1 CiteULike
Summary X Dimensions citations
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Chapter title
Analyzing and Designing Cell Factories with OptFlux
Chapter number 2
Book title
Metabolic Network Reconstruction and Modeling
Published in
Methods in molecular biology, January 2018
DOI 10.1007/978-1-4939-7528-0_2
Pubmed ID
29222748
Book ISBNs
978-1-4939-7527-3, 978-1-4939-7528-0
Authors

Paulo Vilaça, Paulo Maia, Hugo Giesteira, Isabel Rocha, Miguel Rocha

Abstract

OptFlux was launched in 2010 as the first open-source and user-friendly platform containing all the major methods for performing metabolic engineering tasks in silico. Main features included the possibility of performing microbial strain simulations with widely used methods such as Flux Balance Analysis and strain design using Evolutionary Algorithms. Since then, OptFlux suffered a major re-factoring to improve its efficiency and reliability, while many features were added in the form of novel plug-ins, such as the BioVisualizer and the over/under expression plug-ins. The current chapter described the main mathematical formulations of the major methods implemented within OptFlux, also providing a detailed guide on the usage of those functionalities.

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X Demographics

X Demographics

The data shown below were collected from the profiles of 9 X users who shared this research output. Click here to find out more about how the information was compiled.
 Mendeley readers

Mendeley readers

The data shown below were compiled from readership statistics for 60 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
Unknown 60 100%

Demographic breakdown

Readers by professional status Count As %
Student > Ph. D. Student 11 18%
Researcher 7 12%
Student > Master 7 12%
Student > Bachelor 4 7%
Professor 4 7%
Other 11 18%
Unknown 16 27%
Readers by discipline Count As %
Biochemistry, Genetics and Molecular Biology 13 22%
Agricultural and Biological Sciences 12 20%
Chemical Engineering 3 5%
Engineering 2 3%
Computer Science 1 2%
Other 6 10%
Unknown 23 38%
Attention Score in Context

Attention Score in Context

This research output has an Altmetric Attention Score of 7. This is our high-level measure of the quality and quantity of online attention that it has received. This Attention Score, as well as the ranking and number of research outputs shown below, was calculated when the research output was last mentioned on 04 January 2018.
All research outputs
#4,691,030
of 23,011,300 outputs
Outputs from Methods in molecular biology
#1,363
of 13,157 outputs
Outputs of similar age
#102,753
of 442,319 outputs
Outputs of similar age from Methods in molecular biology
#122
of 1,498 outputs
Altmetric has tracked 23,011,300 research outputs across all sources so far. Compared to these this one has done well and is in the 79th percentile: it's in the top 25% of all research outputs ever tracked by Altmetric.
So far Altmetric has tracked 13,157 research outputs from this source. They receive a mean Attention Score of 3.4. This one has done well, scoring higher than 89% of its peers.
Older research outputs will score higher simply because they've had more time to accumulate mentions. To account for age we can compare this Altmetric Attention Score to the 442,319 tracked outputs that were published within six weeks on either side of this one in any source. This one has done well, scoring higher than 76% of its contemporaries.
We're also able to compare this research output to 1,498 others from the same source and published within six weeks on either side of this one. This one has done particularly well, scoring higher than 91% of its contemporaries.

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