Large-scale reconstruction and phylogenetic analysis of metabolic environments (Q36936268)

17 August 2017

Large-scale reconstruction and phylogenetic analysis of metabolic environments (English)

1 reference

17 August 2017

1 reference

4

Eytan Ruppin

1 reference

17 August 2017

1

Elhanan Borenstein

1 reference

17 August 2017

3

Marcus W Feldman

1 reference

17 August 2017

Martin Kupiec

2

1 reference

PMC publication ID

2567166

17 August 2017

language of work or name

English

0 references

publication date

11 September 2008

1 reference

Proceedings of the National Academy of Sciences of the United States of America

17 August 2017

1 reference

17 August 2017

105

1 reference

17 August 2017

38

1 reference

17 August 2017

14482-14487

1 reference

The evolution of modularity in bacterial metabolic networks.

17 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2567166

Environmental variability and modularity of bacterial 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=2567166

Constraint-based functional similarity of metabolic genes: going beyond network topology

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2567166

PAML 4: phylogenetic analysis by maximum likelihood

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2567166

Biotin uptake in prokaryotes by solute transporters with an optional ATP-binding cassette-containing module.

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2567166

A model of flexible uptake of two essential resources

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2567166

Gene loss rate: a probabilistic measure for the conservation of eukaryotic genes

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2567166

Gene expression of Caenorhabditis elegans neurons carries information on their synaptic connectivity

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2567166

The outcomes of pathway database computations depend on pathway ontology

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2567166

Functional genomics of Buchnera and the ecology of aphid hosts

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2567166

On the Evolution of Biochemical Syntheses

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2567166

Extraction of phylogenetic network modules from the metabolic network

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2567166

Toward Automatic Reconstruction of a Highly Resolved Tree of Life

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2567166

Comparative genomics of emerging human ehrlichiosis agents

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2567166

From genomics to chemical genomics: new developments in KEGG

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2567166

Universality in intermediary metabolism

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2567166

Global organization of metabolic fluxes in the bacterium Escherichia coli

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2567166

Gene loss, protein sequence divergence, gene dispensability, expression level, and interactivity are correlated in eukaryotic evolution

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2567166

Metabolic network structure determines key aspects of functionality and regulation

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2567166

Escherichia coli K-12 undergoes adaptive evolution to achieve in silico predicted optimal growth

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2567166

Pathway evolution, structurally speaking

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2567166

The process of genome shrinkage in the obligate symbiont Buchnera aphidicola

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2567166

The large-scale organization of 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=2567166

Genome sequence of the endocellular bacterial symbiont of aphids Buchnera sp. APS

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2567166

Genome Sequence of an Obligate Intracellular Pathogen of Humans: Chlamydia trachomatis

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2567166

The origin and early evolution of life: prebiotic chemistry, the pre-RNA world, and time.

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2567166

Estimation of the number of nucleotide substitutions in the control region of mitochondrial DNA in humans and chimpanzees

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2567166

Biosynthesis of biotin from dethiobiotin by the biotin auxotroph Lactobacillus plantarum

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2567166

A cross species comparison of metabolic network functions.

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2567166

Evolutionary changes of metabolic networks and their biosynthetic capacities.

27 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2567166

Evolutionary dynamics of prokaryotic transcriptional regulatory networks

4 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2567166

Adaptive evolution of bacterial metabolic networks by horizontal gene transfer.

4 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2567166

Expanding metabolic networks: scopes of compounds, robustness, and evolution

4 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2567166

Metabolic network analysis of the causes and evolution of enzyme dispensability in yeast

4 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2567166

Biological networks: the tinkerer as an engineer.

4 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2567166

Toward Defining the Course of Evolution: Minimum Change for a Specific Tree Topology

4 September 2018

1 reference

Crossref

https://api.crossref.org/works/10.1073%2FPNAS.0806162105

Fighting change with change: adaptive variation in an uncertain world

21 January 2018

1 reference

Crossref

https://api.crossref.org/works/10.1073%2FPNAS.0806162105

The effect of oxygen on biochemical networks and the evolution of complex life

21 January 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/18787117

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Functional essentiality from topology features in metabolic networks: a case study in yeast

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/18787117

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Multiple knockout analysis of genetic robustness in the yeast metabolic network

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/18787117

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1073/PNAS.0806162105

1 reference

17 August 2017

0 references

1 reference

PMC publication ID

2567166

17 August 2017

PubMed publication ID

18787117

1 reference

PMC publication ID

2567166