(Q30663403)

19 August 2017

GIM3E: condition-specific models of cellular metabolism developed from metabolomics and expression data (English)

1 reference

19 August 2017

1 reference

3

Thomas O Metz

1 reference

19 August 2017

Ali Ebrahim

2

0 references

Bernhard Palsson

series ordinal

5

object named as

Bernhard Ø Palsson

1 reference

19 August 2017

Brian J Schmidt

1

1 reference

19 August 2017

Joshua N Adkins

series ordinal

4

1 reference

19 August 2017

Daniel R Hyduke

series ordinal

6

1 reference

19 August 2017

language of work or name

English

0 references

publication date

23 August 2013

1 reference

19 August 2017

1 reference

19 August 2017

29

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19 August 2017

22

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19 August 2017

2900-2908

1 reference

describes a project that uses

19 August 2017

limma

1 reference

22 June 2022

https://europepmc.org/article/PMC/3810847

based on heuristic

inferred from PubMed Central ID database lookup

cites work

COBRApy: COnstraints-Based Reconstruction and Analysis for Python

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3810847

Top-down proteomics reveals a unique protein S-thiolation switch in Salmonella Typhimurium in response to infection-like conditions.

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3810847

Parallel exploitation of diverse host nutrients enhances Salmonella virulence.

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3810847

Salmonella modulates metabolism during growth under conditions that induce expression of virulence genes

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3810847

Analysis of omics data with genome-scale models of metabolism

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3810847

A multi-omic systems approach to elucidating Yersinia virulence mechanisms.

20 June 2018

1 reference

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Mechanistic systems modeling to guide drug discovery and development

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3810847

Shrinking the metabolic solution space using experimental datasets

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3810847

Integration of expression data in genome-scale metabolic network reconstructions

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3810847

Model-driven multi-omic data analysis elucidates metabolic immunomodulators of macrophage activation

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3810847

Using the reconstructed genome-scale human metabolic network to study physiology and pathology

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3810847

KEGG for integration and interpretation of large-scale molecular data sets

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3810847

Systems analysis of multiple regulator perturbations allows discovery of virulence factors in Salmonella

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3810847

A community effort towards a knowledge-base and mathematical model of the human pathogen Salmonella Typhimurium LT2

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3810847

The challenges of integrating multi-omic data sets

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3810847

Metabolic network analysis of Pseudomonas aeruginosa during chronic cystic fibrosis lung infection

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3810847

Integrating quantitative proteomics and metabolomics with a genome-scale metabolic network model

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3810847

What is flux balance analysis?

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3810847

Applications of genome-scale metabolic reconstructions

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3810847

Quantitative assignment of reaction directionality in constraint-based models of metabolism: application to Escherichia coli

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3810847

Comprehensive identification of Salmonella enterica serovar typhimurium genes required for infection of BALB/c mice

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3810847

The growing scope of applications of genome-scale metabolic reconstructions using Escherichia coli

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3810847

Context-specific metabolic networks are consistent with experiments

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3810847

A comparison of background correction methods for two-colour microarrays

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3810847

Thermodynamics-based metabolic flux analysis

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3810847

Metabolic networks in motion: 13C-based flux analysis

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3810847

Integration of metabolome data with metabolic networks reveals reporter reactions

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3810847

Putative regulatory sites unraveled by network-embedded thermodynamic analysis of metabolome data

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3810847

EFFECT OF TEMPERATURE ON THE COMPOSITION OF FATTY ACIDS IN ESCHERICHIA COLI

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3810847

Uncovering transcriptional regulation of metabolism by using metabolic network topology

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3810847

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

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3810847

KEGG: kyoto encyclopedia of genes and genomes

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3810847

Genetic and biochemical analyses of pantothenate biosynthesis in Escherichia coli and Salmonella typhimurium

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3810847

Repression of cytosine deaminase by pyrimidines in Salmonella typhimurium

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3810847

The Enzymic Synthesis of l-Cysteine in Escherichia coli and Salmonella typhimurium

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3810847

Salmonella typhimurium activates virulence gene transcription within acidified macrophage phagosomes

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3810847

Environmental regulation of Salmonella pathogenicity island 2 gene expression.

20 June 2018

1 reference

Crossref

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTT493

Inducible prophages contribute to Salmonella virulence in mice

21 January 2018

1 reference

Crossref

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTT493

Predicting gene essentiality using genome-scale in silico models

21 January 2018

1 reference

Crossref

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTT493

Fatty acid in lipopolysaccharides of Salmonella species grown at low temperature. Identification and position.

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3810847

10.1093/BIOINFORMATICS/BTT493

25 November 2018

Identifiers

DOI

1 reference

journals/bioinformatics/SchmidtEMAPH13

19 August 2017

1 reference

DBLP Dataset 2021-01-02

28 January 2021

1 reference

19 August 2017

PubMed publication ID

23975765

1 reference