Improving the phenotype predictions of a yeast genome-scale metabolic model by incorporating enzymatic constraints (Q38639782)

5 September 2017

Improving the phenotype predictions of a yeast genome-scale metabolic model by incorporating enzymatic constraints (English)

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5 September 2017

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8 June 2020

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8 June 2020

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8 June 2020

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8 June 2020

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8 June 2020

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8 June 2020

Petri-Jaan Lahtvee

1 reference

5 September 2017

3 August 2017

1 reference

full work available at URL

5 September 2017

https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5572397

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published in

Molecular Systems Biology

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8 June 2020

volume

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8 June 2020

issue

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8 June 2020

page(s)

935

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describes a project that uses

8 June 2020

Cytoscape

object named as

Cytoscape

2 references

9 June 2022

https://europepmc.org/search?query=(METHODS:'Cytoscape')

based on heuristic

inferred from PubMed Central ID database lookup

CZ Software Mentions: A large dataset of software mentions in the biomedical literature

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The Protein Cost of Metabolic Fluxes: Prediction from Enzymatic Rate Laws and Cost Minimization

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6 September 2017

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6 September 2017

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Quantitative proteomic analysis reveals a simple strategy of global resource allocation in bacteria

6 September 2017

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6 September 2017

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Genome-scale analysis of the high-efficient protein secretion system of Aspergillus oryzae

6 September 2017

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Revising the Representation of Fatty Acid, Glycerolipid, and Glycerophospholipid Metabolism in the Consensus Model of Yeast Metabolism

6 September 2017

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Genome-scale models of metabolism and gene expression extend and refine growth phenotype prediction

6 September 2017

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6 September 2017

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6 September 2017

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Industrial systems biology of Saccharomyces cerevisiae enables novel succinic acid cell factory

6 September 2017

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The PRoteomics IDEntifications (PRIDE) database and associated tools: status in 2013

6 September 2017

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6 September 2017

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6 September 2017

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6 September 2017

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6 September 2017

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6 September 2017

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6 September 2017

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6 September 2017

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6 September 2017

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6 September 2017

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Omic data from evolved E. coli are consistent with computed optimal growth from genome-scale models

6 September 2017

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Sampling the solution space in genome-scale metabolic networks reveals transcriptional regulation in key enzymes

6 September 2017

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What is flux balance analysis?

6 September 2017

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Defining the potassium binding region in an apple terpene synthase

6 September 2017

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Oxygen dependence of metabolic fluxes and energy generation of Saccharomyces cerevisiae CEN.PK113-1A.

6 September 2017

1 reference

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Impact of the solvent capacity constraint on E. coli metabolism

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5572397

Integration of biological networks and gene expression data using Cytoscape

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5572397

Intracellular crowding defines the mode and sequence of substrate uptake by Escherichia coli and constrains its metabolic activity.

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5572397

Evolutionary programming as a platform for in silico metabolic engineering

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5572397

The effects of alternate optimal solutions in constraint-based genome-scale metabolic models

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5572397

Saccharomyces cerevisiae phenotypes can be predicted by using constraint-based analysis of a genome-scale reconstructed metabolic network

6 September 2017

1 reference

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The SWISS-PROT protein knowledgebase and its supplement TrEMBL in 2003

6 September 2017

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6 September 2017

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Stabilization against thermal inactivation promoted by sugars on enzyme structure and function: why is trehalose more effective than other sugars?

6 September 2017

1 reference

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The mitochondrial alcohol dehydrogenase Adh3p is involved in a redox shuttle in Saccharomyces cerevisiae

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5572397

Effect of specific growth rate on fermentative capacity of baker's yeast

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5572397

Quantitative prediction of genome-wide resource allocation in bacteria

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5572397

Dependency of size of Saccharomyces cerevisiae cells on growth rate

14 September 2017

1 reference

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How biochemical constraints of cellular growth shape evolutionary adaptations in metabolism.

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5572397

Shifts in growth strategies reflect tradeoffs in cellular economics

25 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5572397

Flux distributions in anaerobic, glucose-limited continuous cultures of Saccharomyces cerevisiae.

23 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5572397

Metabolic engineering of Saccharomyces cerevisiae for the biotechnological production of succinic acid

23 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5572397

An interlaboratory comparison of physiological and genetic properties of four Saccharomyces cerevisiae strains

31 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5572397

Overexpression of a cytosolic hydroxymethylglutaryl-CoA reductase leads to squalene accumulation in yeast.

31 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5572397

Applications of computational modeling in metabolic engineering of yeast

31 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5572397

Regulation of fermentative capacity and levels of glycolytic enzymes in chemostat cultures of Saccharomyces cerevisiae

3 December 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/28779005

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Improving the flux distributions simulated with genome-scale metabolic models of Saccharomyces cerevisiae.

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/28779005

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.15252/MSB.20167411

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28779005%20AND%20SRC:MED&resulttype=core&format=json

8 June 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28779005%20AND%20SRC:MED&resulttype=core&format=json

8 June 2020

PubMed publication ID

28779005

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28779005%20AND%20SRC:MED&resulttype=core&format=json