EC-BLAST statistics

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Citations per year

Number of citations per year for the bioinformatics software tool EC-BLAST
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EC-BLAST specifications

Information


Unique identifier OMICS_20284
Name EC-BLAST
Interface Web user interface
Restrictions to use None
Input data EC Number or reaction name or a molecule name or a molecule file.
Input format MDL V2
Output data The mapping with best chemical outcome.
Computer skills Basic
Stability Stable
Maintained Yes

Maintainer


  • person_outline Janet Thornton

Additional information


http://www.ebi.ac.uk/thornton-srv/software/rbl/faq.html

Publication for EC-BLAST

EC-BLAST citations

 (9)
library_books

A review of computational tools for design and reconstruction of metabolic pathways

2017
PMCID: 5851934
PMID: 29552648
DOI: 10.1016/j.synbio.2017.11.002

[…] al biologically incorrect predictions (i.e., subsequent reaction steps may use different stereoisomers). However, stereochemical changes have already been captured by many computational tools such as EC-Blast and Reaction Decoder Tool , which use the Chemistry Development Kit (CDK) , and CLCA to model stereochemical changes by appending stereochemical descriptors to the canonical labeling of eac […]

library_books

Comparative evaluation of atom mapping algorithms for balanced metabolic reactions: application to Recon 3D

2017
J Cheminform
PMCID: 5471289
DOI: 10.1186/s13321-017-0223-1

[…] ses and genome-scale metabolic network reconstructions. To our knowledge, only the BioPath [] and KEGG RPAIR [] databases disseminate manually curated atom mappings. Other metabolic databases such as EC-BLAST [] MetaCyc [] and MetRxn [] include predicted atom mappings.A genome-scale metabolic reconstruction is a structured knowledge-base that abstracts pertinent information on the biochemical tran […]

library_books

An update on the Enzyme Portal: an integrative approach for exploring enzyme knowledge

2017
PMCID: 5421622
PMID: 28158609
DOI: 10.1093/protein/gzx008

[…] Enzyme Portal to serve different purposes for different scientific communities interested in enzymes and to help answer their questions accurately. Future work includes adding analysis tools such as EC Blast (http://www.ebi.ac.uk/thornton-srv/software/rbl/) (). We welcome feedback from the community to help grow the Enzyme Portal with new functionality and further resources. […]

library_books

Metabolic pathway reconstruction strategies for central metabolism and natural product biosynthesis

2016
Biophys Physicobiol
PMCID: 5042172
PMID: 27924274
DOI: 10.2142/biophysico.13.0_195

[…] based not on amino acid sequence similarity but on chemical structure similarity. Several other methods to predict EC numbers from chemical structures have been subsequently developed [–], including EC-BLAST [], which allows one to search for enzymatic reactions with EC numbers that are similar to the query reaction based on bond-change, reaction-center, or reaction-structure similarity. […]

library_books

Reaction Decoder Tool (RDT): extracting features from chemical reactions

2016
Bioinformatics
PMCID: 4920114
PMID: 27153692
DOI: 10.1093/bioinformatics/btw096

[…] Tools like EC-Blast (), FunTree (), MACiE () etc. use RDT in the background to mine and extract chemical information from thousands of enzyme reactions. The success rate of mapping is >99% when compared with man […]

library_books

Characterising Complex Enzyme Reaction Data

2016
PLoS One
PMCID: 4740462
PMID: 26840640
DOI: 10.1371/journal.pone.0147952

[…] mical attributes from biochemical reactions such as bond changes is necessary to compare enzymes based on the chemistry of their catalysed reactions. In order to calculate chemical attributes we used EC-BLAST, a recently-developed algorithm to obtain accurate atom-atom mapping, extract bond changes and perform similarity searches between enzyme reactions [].To study reaction diversity across the E […]


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EC-BLAST institution(s)
European Molecular Biology Laboratory - European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Hinxton, Cambridge, UK ; European Molecular Biology Laboratory - European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Hinxton, Cambridge, UK ; European Molecular Biology Laboratory - European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Hinxton, Cambridge, UK; Department of Pathogen Molecular Biology, London School of Hygiene & Tropical Medicine, London, UK; European Molecular Biology Laboratory - European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Hinxton, Cambridge, UK; Department of Bioengineering and Therapeutic Sciences, University of California, San Francisco, CA, USA; European Molecular Biology Laboratory - European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Hinxton, Cambridge, UK
EC-BLAST funding source(s)
Supported by the EMBL. NF is funded by the Wellcome Trust (Grant No.081989/Z/07/A).

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