(Q28484023)

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The CanOE strategy: integrating genomic and metabolic contexts across multiple prokaryote genomes to find candidate genes for orphan enzymes

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scholarly article

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The CanOE strategy: integrating genomic and metabolic contexts across multiple prokaryote genomes to find candidate genes for orphan enzymes (English)

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object named as

Eugeni Belda

2

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object named as

David Vallenet

5

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author name string

Adam Alexander Thil Smith

1

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Alain Viari

3

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Claudine Medigue

4

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publication date

May 2012

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PLOS Computational Biology

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8

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5

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e1002540

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copyright license

Creative Commons Attribution 4.0 International

31 May 2012

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April 2022 Public Data File from Crossref

copyright status

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The Enzyme Function Initiative

1 reference

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The ygeW encoded protein from Escherichia coli is a knotted ancestral catabolic transcarbamylase

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19 March 2017

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19 March 2017

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19 March 2017

Prediction of missing enzyme genes in a bacterial metabolic network. Reconstruction of the lysine-degradation pathway of Pseudomonas aeruginosa

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19 March 2017

A Bayesian method for identifying missing enzymes in predicted metabolic pathway databases

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19 March 2017

OXAMIC TRANSCARBAMYLASE OF STREPTOCOCCUS ALLANTOICUS

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19 March 2017

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19 March 2017

InterPro--an integrated documentation resource for protein families, domains and functional sites

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19 March 2017

Gene ontology: tool for the unification of biology

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19 March 2017

The use of gene clusters to infer functional coupling

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19 March 2017

Detecting protein function and protein-protein interactions from genome sequences

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7 April 2017

Assigning protein functions by comparative genome analysis: Protein phylogenetic profiles

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7 April 2017

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7 April 2017

The MetaCyc Database of metabolic pathways and enzymes and the BioCyc collection of Pathway/Genome Databases

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7 April 2017

A combined algorithm for genome-wide prediction of protein function

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7 April 2017

Rhea--a manually curated resource of biochemical reactions

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29 September 2017

Genome-wide discovery of missing genes in biological pathways of prokaryotes

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29 September 2017

A systematic study of genome context methods: calibration, normalization and combination

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29 September 2017

Systematizing the generation of missing metabolic knowledge

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29 September 2017

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29 September 2017

Is protein classification necessary? Toward alternative approaches to function annotation

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3364942

29 September 2017

A conserved gene cluster rules anaerobic oxidative degradation of L-ornithine

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29 September 2017

New insights into the alternative D-glucarate degradation pathway.

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29 September 2017

Using genome-context data to identify specific types of functional associations in pathway/genome databases

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3364942

29 September 2017

A survey of orphan enzyme activities

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3364942

29 September 2017

The outcomes of pathway database computations depend on pathway ontology

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29 September 2017

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29 September 2017

Identifying metabolic enzymes with multiple types of association evidence

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29 September 2017

Puzzling over orphan enzymes

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3364942

29 September 2017

Syntons, metabolons and interactons: an exact graph-theoretical approach for exploring neighbourhood between genomic and functional data.

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29 September 2017

Missing genes in metabolic pathways: a comparative genomics approach

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29 September 2017

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29 September 2017

Gene context conservation of a higher order than operons.

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29 September 2017

A heuristic graph comparison algorithm and its application to detect functionally related enzyme clusters

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29 September 2017

Genetic analysis of a chromosomal region containing genes required for assimilation of allantoin nitrogen and linked glyoxylate metabolism in Escherichia coli

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3364942

29 September 2017

Complexes of sequential metabolic enzymes

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3364942

29 September 2017

A bidirectional rho-independent transcription terminator between the E. coli tonB gene and an opposing gene.

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3364942

2 June 2018

Identification of the last unknown genes in the fermentation pathway of lysine

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https://api.crossref.org/works/10.1371%2FJOURNAL.PCBI.1002540

21 January 2018

Filling gaps in a metabolic network using expression information

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https://api.crossref.org/works/10.1371%2FJOURNAL.PCBI.1002540

21 January 2018

Distribution of orphan metabolic activities

1 reference

https://pubmed.ncbi.nlm.nih.gov/22693442

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

INDUCTION OF CARBAMYL-P SPECIFIC OXAMATE TRANSCARBAMYLASE BY PARABANIC ACID IN A STREPTOCOCCUS

1 reference

https://pubmed.ncbi.nlm.nih.gov/22693442

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Identifiers

10.1371/JOURNAL.PCBI.1002540

1 reference

Consolidated OpenCitations Corpus – April 2017

OpenCitations bibliographic resource ID

DBLP publication ID

journals/ploscb/SmithBVMV12

1 reference

DBLP Dataset 2021-01-02

28 January 2021

OpenCitations bibliographic resource ID

1 reference

Consolidated OpenCitations Corpus – April 2017

OpenCitations bibliographic resource ID

PMC publication ID

1 reference

Consolidated OpenCitations Corpus – April 2017

OpenCitations bibliographic resource ID

PubMed publication ID

1 reference

Consolidated OpenCitations Corpus – April 2017

OpenCitations bibliographic resource ID

ResearchGate publication ID

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