Systematic integration of experimental data and models in systems biology (Q27496467)

Peter Li

1

0 references

Evangelos Simeonidis

Evangelos Simeonidis

11

0 references

Pedro Mendes

Pedro Mendes

20

0 references

Warwick Dunn

Warwick Dunn

7

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Norman William Paton

Norman W Paton

21

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Carole Goble

Carole A Goble

16

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Hans Westerhoff

Hans V Westerhoff

19

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Douglas Kell

Douglas B Kell

18

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Naglis Malys

Naglis Malys

9

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Joseph O Dada

Joseph O Dada

2

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Neil Swainston

5

Neil Swainston

0 references

Irena Spasić

4

Irena Spasic

0 references

Dieter Weichart

12

Dieter Weichart

0 references

Kathleen M. Carroll

6

Kathleen Carroll

0 references

Hanan L Messiha

10

Isabelle Catherine Winder

Hanan L Messiha

0 references

13

Catherine Winder

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Jill Wishart

14

Jill Wishart

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author name string

Farid Khan

8

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David S Broomhead

15

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Simon J Gaskell

Creative Commons Attribution 2.0 Generic

17

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publication date

29 November 2010

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published in

BMC Bioinformatics

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volume

11

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page(s)

582

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copyright license

start time

29 November 2010

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

1 reference

April 2022 Public Data File from Crossref

exact match

https://scigraph.springernature.com/pub.10.1186/1471-2105-11-582

0 references

cites work

A consensus yeast metabolic network reconstruction obtained from a community approach to systems biology

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3008707

KEGG for linking genomes to life and the environment

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3008707

ChEBI: a database and ontology for chemical entities of biological interest

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3008707

Global reconstruction of the human metabolic network based on genomic and bibliomic data

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3008707

BioModels Database: a free, centralized database of curated, published, quantitative kinetic models of biochemical and cellular systems

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3008707

Gene ontology: tool for the unification of biology

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3008707

The systems biology markup language (SBML): a medium for representation and exchange of biochemical network models

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3008707

The markup is the model: reasoning about systems biology models in the Semantic Web era

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3008707

Taverna: a tool for building and running workflows of services

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3008707

Minimum information requested in the annotation of biochemical models (MIRIAM)

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3008707

Taverna: a tool for the composition and enactment of bioinformatics workflows

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3008707

Reactome: a knowledge base of biologic pathways and processes

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3008707

COPASI--a COmplex PAthway SImulator

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3008707

Enzyme kinetics informatics: from instrument to browser

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3008707

Integration of metabolic databases for the reconstruction of genome-scale metabolic networks

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3008707

Streamlining the construction of large-scale dynamic models using generic kinetic equations.

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3008707

SBRML: a markup language for associating systems biology data with models

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3008707

libAnnotationSBML: a library for exploiting SBML annotations

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3008707

The UniProtKB/Swiss-Prot knowledgebase and its plant proteome annotation program

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3008707

The PRIDE proteomics identifications database: data submission, query, and dataset comparison

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3008707

SYCAMORE--a systems biology computational analysis and modeling research environment

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3008707

LibSBML: an API library for SBML.

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3008707

Automated manipulation of systems biology models using libSBML within Taverna workflows

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3008707

The Edinburgh human metabolic network reconstruction and its functional analysis

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3008707

Integration of CellDesigner and SABIO-RK.

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3008707

Storing and annotating of kinetic data

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3008707

Systems biology, metabolic modelling and metabolomics in drug discovery and development

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3008707

MeMo: a hybrid SQL/XML approach to metabolomic data management for functional genomics

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3008707

Reconstruction and validation of Saccharomyces cerevisiae iND750, a fully compartmentalized genome-scale metabolic model

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3008707

Saccharomyces genome database: underlying principles and organisation

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3008707

Web-based kinetic modelling using JWS Online.

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3008707

Parameter estimation in biochemical pathways: a comparison of global optimization methods

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3008707

Metabolic modeling of microbial strains in silico.

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3008707

Non-linear optimization of biochemical pathways: applications to metabolic engineering and parameter estimation

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3008707

Oscillatory, stochastic and chaotic growth rate fluctuations in permittistatically controlled yeast cultures.

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3008707

Schemes of flux control in a model of Saccharomyces cerevisiae glycolysis

2 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3008707

Can yeast glycolysis be understood in terms of in vitro kinetics of the constituent enzymes? Testing biochemistry

27 November 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/21114840

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Hybridization array technology coupled with chemostat culture: Tools to interrogate gene expression in Saccharomyces cerevisiae

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/21114840

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1186/1471-2105-11-582

0 references

DBLP publication ID

journals/bmcbi/LiDJSSCDKMMSWWWBGGKWMP10

1 reference

DBLP Dataset 2021-01-02