Integrated network reconstruction, visualization and analysis using YANAsquare. (Q30480219)

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:17725829 AND SRC:MED&resulttype=core&format=json

4 January 2020

review article

1 reference

title

Integrated network reconstruction, visualization and analysis using YANAsquare (English)

1 reference

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4 January 2020

1 reference

10

1 reference

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4 January 2020

Roland Schwarz

1

1 reference

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4 January 2020

Christoph Kaleta

3

1 reference

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4 January 2020

Eik Hoffmann

5

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4 January 2020

9

Stefan Schuster

1 reference

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4 January 2020

7

Michael Hecker

1 reference

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4 January 2020

author name string

Chunguang Liang

2

1 reference

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4 January 2020

Mark Kühnel

4

1 reference

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4 January 2020

Sergei Kuznetsov

6

1 reference

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4 January 2020

Gareth Griffiths

8

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4 January 2020

publication date

28 August 2007

1 reference

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4 January 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:17725829 AND SRC:MED&resulttype=core&format=json

4 January 2020

volume

8

1 reference

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4 January 2020

page(s)

313

1 reference

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BRENDA, AMENDA and FRENDA: the enzyme information system in 2007

4 January 2020

cites work

1 reference

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TransportDB: a comprehensive database resource for cytoplasmic membrane transport systems and outer membrane channels

20 June 2018

1 reference

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COPASI--a COmplex PAthway SImulator

20 June 2018

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Metatool 5.0: fast and flexible elementary modes analysis

20 June 2018

1 reference

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Robust Salmonella metabolism limits possibilities for new antimicrobials.

20 June 2018

1 reference

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SNA--a toolbox for the stoichiometric analysis of metabolic networks

20 June 2018

1 reference

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13C isotopologue perturbation studies of Listeria monocytogenes carbon metabolism and its modulation by the virulence regulator PrfA

20 June 2018

1 reference

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Use of constraint-based modeling for the prediction and validation of antimicrobial targets

20 June 2018

1 reference

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In silico genome-scale reconstruction and validation of the Staphylococcus aureus metabolic network.

20 June 2018

1 reference

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YANA - a software tool for analyzing flux modes, gene-expression and enzyme activities

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2020486

Genome-scale reconstruction of the metabolic network in Staphylococcus aureus N315: an initial draft to the two-dimensional annotation

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2020486

Computation of elementary modes: a unifying framework and the new binary approach

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2020486

Comparison of network-based pathway analysis methods

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2020486

Next generation simulation tools: the Systems Biology Workbench and BioSPICE integration

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2020486

TransportDB: a relational database of cellular membrane transport systems

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2020486

The KEGG resource for deciphering the genome

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2020486

Advances in 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=2020486

Exploring the pathway structure of metabolism: decomposition into subnetworks and application to Mycoplasma pneumoniae

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2020486

A general definition of metabolic pathways useful for systematic organization and analysis of complex metabolic networks

20 June 2018

1 reference

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The ENZYME database in 2000

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2020486

Metabolic pathway analysis: basic concepts and scientific applications in the post-genomic era.

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2020486

Detection of elementary flux modes in biochemical networks: a promising tool for pathway analysis and metabolic engineering.

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2020486

GEPASI: a software package for modelling the dynamics, steady states and control of biochemical and other systems

20 June 2018

1 reference

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Chemical organisation theory.

20 June 2018

1 reference

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Analysis of structural robustness of metabolic networks.

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2020486

A method for the determination of flux in elementary modes, and its application to Lactobacillus rhamnosus

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2020486

Minimal cut sets in biochemical reaction networks

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2020486

Selected lipids activate phagosome actin assembly and maturation resulting in killing of pathogenic mycobacteria

26 November 2018

1 reference

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FluxAnalyzer: exploring structure, pathways, and flux distributions in metabolic networks on interactive flux maps

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2020486

Robustness analysis of the Escherichia coli metabolic network

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2020486

METATOOL: for studying metabolic networks.

26 November 2018

1 reference

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Biochemistry by numbers: simulation of biochemical pathways with Gepasi 3

26 November 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/17725829

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1186/1471-2105-8-313

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:17725829 AND SRC:MED&resulttype=core&format=json

journals/bmcbi/SchwarzLKKHKHGSD07

4 January 2020

DBLP publication ID

1 reference

DBLP Dataset 2021-01-02

28 January 2021

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:17725829 AND SRC:MED&resulttype=core&format=json

4 January 2020

PubMed publication ID

17725829

1 reference