(Q34977461)

5 August 2017

title

The outcomes of pathway database computations depend on pathway ontology (English)

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5 August 2017

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2

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5 August 2017

M L Green

1

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5 August 2017

language of work or name

English

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publication date

7 August 2006

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5 August 2017

published in

Nucleic Acids Research

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5 August 2017

volume

34

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5 August 2017

issue

13

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5 August 2017

page(s)

3687-3697

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BioWarehouse: a bioinformatics database warehouse toolkit

5 August 2017

cites work

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1540720

Expansion of the BioCyc collection of pathway/genome databases to 160 genomes

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1540720

PAX of mind for pathway researchers

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1540720

STRING: known and predicted protein-protein associations, integrated and transferred across organisms

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1540720

Call for an enzyme genomics initiative

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1540720

Comparison of network-based pathway analysis methods

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1540720

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

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1540720

Prolinks: a database of protein functional linkages derived from coevolution

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1540720

Prediction of protein function and pathways in the genome era.

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1540720

Identifying protein function--a call for community action

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1540720

The KEGG resource for deciphering the genome

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1540720

Genome evolution reveals biochemical networks and functional modules

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1540720

Systems biology markup language: Level 2 and beyond

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1540720

The society of genes: networks of functional links between genes from comparative genomics

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1540720

The Pathway Tools software

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1540720

Evolution of gene fusions: horizontal transfer versus independent events

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1540720

GenMAPP, a new tool for viewing and analyzing microarray data on biological pathways

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1540720

Computational method to assign microbial genes to pathways

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1540720

Protein interaction maps for complete genomes based on gene fusion events

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1540720

A combined algorithm for genome-wide prediction of protein function

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1540720

Detecting protein function and protein-protein interactions from genome sequences

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1540720

Assigning protein functions by comparative genome analysis: Protein phylogenetic profiles

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1540720

The use of gene clusters to infer functional coupling

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1540720

Conservation of gene order: a fingerprint of proteins that physically interact

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1540720

Representations of molecular pathways: an evaluation of SBML, PSI MI and BioPAX.

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1540720

Identification of functional links between genes using phylogenetic profiles

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1540720

Use of contiguity on the chromosome to predict functional coupling.

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1540720

Microbial genescapes: phyletic and functional patterns of ORF distribution among prokaryotes

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1540720

Prediction of protein interactions: metabolic enzymes are frequently involved in gene fusion

26 October 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/16893953

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifying functional links between genes using conserved chromosomal proximity

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/16893953

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Integrated pathway–genome databases and their role in drug discovery

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/16893953

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1093/NAR/GKL438

1 reference

5 August 2017

1 reference

5 August 2017

1 reference