Expansion of the BioCyc collection of pathway/genome databases to 160 genomes (Q24535096)

5 July 2017

title

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

1 reference

5 July 2017

0 references

1 reference

5 July 2017

1 reference

5 July 2017

Sophia Tsoka

0 references

Caroline Moore-Kochlacs

series ordinal

object named as

Caroline Moore-Kochlacs

1 reference

5 July 2017

Christos A Ouzounis

0 references

Victor Kunin

1 reference

5 July 2017

Leon Goldovsky

1 reference

5 July 2017

Nikos Darzentas

1 reference

5 July 2017

Pallavi Kaipa

1 reference

5 July 2017

Dag Ahrén

series ordinal

1 reference

5 July 2017

language of work or name

English

0 references

publication date

24 October 2005

1 reference

5 July 2017

published in

Nucleic Acids Research

1 reference

5 July 2017

1 reference

5 July 2017

1 reference

5 July 2017

page(s)

6083-6089

1 reference

describes a project that uses

5 July 2017

SQL

1 reference

26 June 2022

https://europepmc.org/article/PMC/PMC1266070

inferred from PubMed Central ID database lookup

cites work

Genome annotation errors in pathway databases due to semantic ambiguity in partial EC numbers

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1266070

Computational prediction of human metabolic pathways from the complete human genome

24 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1266070

NCBI Reference Sequence (RefSeq): a curated non-redundant sequence database of genomes, transcripts and proteins

24 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1266070

The Mouse Genome Database (MGD): from genes to mice--a community resource for mouse biology

24 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1266070

FlyBase: genes and gene models

24 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1266070

24 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1266070

EcoCyc: a comprehensive database resource for Escherichia coli

24 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1266070

The Universal Protein Resource (UniProt)

24 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1266070

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

24 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1266070

The past, present and future of genome-wide re-annotation

24 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1266070

The complete genome sequence of Francisella tularensis, the causative agent of tularemia

24 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1266070

The KEGG resource for deciphering the genome

24 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1266070

Whole-genome random sequencing and assembly of Haemophilus influenzae Rd

24 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1266070

Querying and computing with BioCyc databases

24 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1266070

The Pathway Tools software

24 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1266070

Saccharomyces Genome Database (SGD) provides tools to identify and analyze sequences from Saccharomyces cerevisiae and related sequences from other organisms

24 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1266070

MagicMatch--cross-referencing sequence identifiers across databases

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1266070

An evidence ontology for use in pathway/genome databases.

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1266070

Metabolic database systems for the analysis of genome-wide function

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1266070

MetaCyc: a multiorganism database of metabolic pathways and enzymes.

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1266070

COmplete GENome Tracking (COGENT): a flexible data environment for computational genomics

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1266070

The phylogenetic extent of metabolic enzymes and pathways

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1266070

The Arabidopsis Information Resource (TAIR): a model organism database providing a centralized, curated gateway to Arabidopsis biology, research materials and community

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1266070

Pathway databases: a case study in computational symbolic theories

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1266070

Functional versatility and molecular diversity of the metabolic map of Escherichia coli.

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1266070

An ontology for biological function based on molecular interactions

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1266070

Global properties of the metabolic map of Escherichia coli

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1266070

WIT: integrated system for high-throughput genome sequence analysis and metabolic reconstruction

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1266070

Computational analysis of Plasmodium falciparum metabolism: organizing genomic information to facilitate drug discovery

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1266070

Using functional and organizational information to improve genome-wide computational prediction of transcription units on pathway-genome databases

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1266070

PseudoCyc, a pathway-genome database for Pseudomonas aeruginosa

29 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1266070

Evaluation of computational metabolic-pathway predictions for Helicobacter pylori

29 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1266070

The Comprehensive Microbial Resource.

29 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1266070

Prediction of enzyme classification from protein sequence without the use of sequence similarity.

29 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1266070

HinCyc: a knowledge base of the complete genome and metabolic pathways of H. influenzae

29 November 2018

1 reference

12 December 2020

Robustness of metabolic map reconstruction

1 reference

12 December 2020

MultiFun, a multifunctional classification scheme for Escherichia coli K-12 gene products

1 reference

12 December 2020

Integrated pathway–genome databases and their role in drug discovery

1 reference

12 December 2020

1 reference

12 December 2020

Identifiers

DOI

10.1093/NAR/GKI892

1 reference

release_ttfs5gffgvgebfj5fvozjybg2m

5 July 2017

Fatcat ID

0 references

OpenCitations bibliographic resource ID

2290087

1 reference

Consolidated OpenCitations Corpus – April 2017

OpenCitations bibliographic resource ID

1 reference

5 July 2017

1 reference