Optimizing genome-scale network reconstructions (Q46774634)

25 December 2017

title

Optimizing genome-scale network reconstructions (English)

1 reference

25 December 2017

3

Bernhard O Palsson

1 reference

25 December 2017

author name string

Jonathan Monk

series ordinal

1

1 reference

25 December 2017

Juan Nogales

series ordinal

2

1 reference

25 December 2017

publication date

1 May 2014

1 reference

25 December 2017

published in

Nature Biotechnology

1 reference

25 December 2017

volume

32

1 reference

25 December 2017

issue

5

1 reference

25 December 2017

page(s)

447-452

1 reference

25 December 2017

https://scigraph.springernature.com/pub.10.1038/nbt.2870

exact match

0 references

cites work

A protocol for generating a high-quality genome-scale metabolic reconstruction

1 reference

Fifteen years of large scale metabolic modeling of yeast: developments and impacts

21 January 2018

1 reference

Recent advances in reconstruction and applications of genome-scale metabolic models

21 January 2018

1 reference

Basic and applied uses of genome-scale metabolic network reconstructions of Escherichia coli

21 January 2018

1 reference

Constraint-based models predict metabolic and associated cellular functions.

21 January 2018

1 reference

Systems properties of the Haemophilus influenzae Rd metabolic genotype

21 January 2018

1 reference

Whole-genome random sequencing and assembly of Haemophilus influenzae Rd

21 January 2018

1 reference

An expanded genome-scale model of Escherichia coli K-12 (iJR904 GSM/GPR)

21 January 2018

1 reference

A genome-scale metabolic reconstruction for Escherichia coli K-12 MG1655 that accounts for 1260 ORFs and thermodynamic information

21 January 2018

1 reference

Genome-scale reconstruction of the Saccharomyces cerevisiae metabolic network

21 January 2018

1 reference

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

21 January 2018

1 reference

A community-driven global reconstruction of human metabolism.

21 January 2018

1 reference

Detailing the optimality of photosynthesis in cyanobacteria through systems biology analysis

21 January 2018

1 reference

Metabolic network reconstruction of Chlamydomonas offers insight into light-driven algal metabolism.

21 January 2018

1 reference

High-throughput generation, optimization and analysis of genome-scale metabolic models

21 January 2018

1 reference

MIRAGE: a functional genomics-based approach for metabolic network model reconstruction and its application to cyanobacteria networks

21 January 2018

1 reference

The RAVEN toolbox and its use for generating a genome-scale metabolic model for Penicillium chrysogenum

21 January 2018

1 reference

Teaching the design principles of metabolism

21 January 2018

1 reference

BRENDA in 2013: integrated reactions, kinetic data, enzyme function data, improved disease classification: new options and contents in BRENDA.

21 January 2018

1 reference

Annotation error in public databases: misannotation of molecular function in enzyme superfamilies

21 January 2018

1 reference

The Escherichia coli MG1655 in silico metabolic genotype: its definition, characteristics, and capabilities

21 January 2018

1 reference

A comprehensive genome-scale reconstruction of Escherichia coli metabolism--2011.

21 January 2018

1 reference

Yeast 5 – an expanded reconstruction of the Saccharomyces cerevisiae metabolic network

21 January 2018

1 reference

Escherichia coli K-12: a cooperatively developed annotation snapshot--2005

21 January 2018

1 reference

Global functional atlas of Escherichia coli encompassing previously uncharacterized proteins

21 January 2018

1 reference

Genome coverage, literally speaking. The challenge of annotating 200 genomes with 4 million publications

21 January 2018

1 reference

A survey of orphan enzyme activities

21 January 2018

1 reference

The biomass objective function

21 January 2018

1 reference

Gap-filling analysis of the iJO1366 Escherichia coli metabolic network reconstruction for discovery of metabolic functions

21 January 2018

1 reference

Extensive in vivo metabolite-protein interactions revealed by large-scale systematic analyses

21 January 2018

1 reference

Metabolic footprinting of mutant libraries to map metabolite utilization to genotype

21 January 2018

1 reference

Systematic phenome analysis of Escherichia coli multiple-knockout mutants reveals hidden reactions in central carbon metabolism.

21 January 2018

1 reference

Exploring the diversity of complex metabolic networks.

21 January 2018

1 reference

Optimization based automated curation of metabolic reconstructions

21 January 2018

1 reference

GrowMatch: an automated method for reconciling in silico/in vivo growth predictions

21 January 2018

1 reference

Reconstruction annotation jamborees: a community approach to systems biology

21 January 2018

1 reference

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

21 January 2018

1 reference

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

21 January 2018

1 reference

Discovery of new enzymes and metabolic pathways by using structure and genome context

21 January 2018

1 reference

Structural systems biology evaluation of metabolic thermotolerance in Escherichia coli

21 January 2018

1 reference

A phylogeny-driven genomic encyclopaedia of Bacteria and Archaea

21 January 2018

1 reference

An experimentally validated genome-scale metabolic reconstruction of Klebsiella pneumoniae MGH 78578, iYL1228.

21 January 2018

1 reference

An experimentally-supported genome-scale metabolic network reconstruction for Yersinia pestis CO92.

21 January 2018

1 reference

Thirteen years of building constraint-based in silico models of Escherichia coli

21 January 2018

1 reference

Genome-scale reconstruction of Escherichia coli's transcriptional and translational machinery: a knowledge base, its mathematical formulation, and its functional characterization

21 January 2018

1 reference

In silico method for modelling metabolism and gene product expression at genome scale

21 January 2018

1 reference

Integrating high-throughput and computational data elucidates bacterial networks

21 January 2018

1 reference

Metabolite damage and its repair or pre-emption

21 January 2018

1 reference

Metabolic network reconstruction and genome-scale model of butanol-producing strain Clostridium beijerinckii NCIMB 8052.

21 January 2018

1 reference

MetaNetX.org: a website and repository for accessing, analysing and manipulating metabolic networks.

21 January 2018

1 reference

https://pubmed.ncbi.nlm.nih.gov/24811519

21 January 2018

1 reference

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Distribution of orphan metabolic activities

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/24811519

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Constraining the metabolic genotype-phenotype relationship using a phylogeny of in silico methods

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/24811519

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1038/NBT.2870

1 reference

25 December 2017

PubMed ID

24811519

1 reference

25 December 2017