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KEGG

5413 2 KEGG SOAP

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Overview

Provider:
KEGG

Location:
Japan

Submitter / Source:
Franck Tanoh (over 3 years ago)

Base URL:
http://soap.genome.jp/keggapi/request_v6.2.cgi

WSDL Location:
http://soap.genome.jp/KEGG.wsdl (download last cached WSDL file)

Documentation URL(s):

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Franck Tanoh (over 2 years ago)

http://www.genome.jp/kegg/docs/keggapi_manual.html

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Description(s):

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Franck Tanoh (over 2 years ago)

KEGG (Kyoto Encyclopedia of Genes and Genomes) is a database of biological systems, consisting of genetic building blocks of genes and proteins (KEGG GENES), chemical building blocks of both endogenous and exogenous substances (KEGG LIGAND), molecular wiring diagrams of interaction and reaction networks (KEGG PATHWAY), and hierarchies and relationships of various biological objects (KEGG BRITE). KEGG provides a reference knowledge base for linking genomes to biological systems and also to environments by the processes of PATHWAY mapping and BRITE mapping.
This service allows you to access or retrieve data (genes, pathways, enzyme, drugs, etc) from KEGG.

KEGG home page: http://www.genome.jp/kegg/

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License(s): Info

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Cost:

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Franck Tanoh (over 2 years ago)

free

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Alan WIlliams (12 months ago)

The KEGG services are free to academic users. For non-academic users, please contact the service provider.

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Usage Conditions: Info

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Contact Info: Info

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Franck Tanoh (over 2 years ago)

http://www.genome.jp/feedback/

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Publications: Info

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Tags (6)

Info Favourited By (2)

Info Similar Services (100)

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SOAP Operations (72)

These are the SOAP operations available for the SOAP variant of this service. Click on each one to get more information and to annotate.

Quick Browse | bconv | bfind | bget | binfo | btit | color_pathway_by_elements | color_pathway_by_objects | convert_mol_to_kcf | get_best_best_neighbors_by_gene | get_best_neighbors_by_gene | get_compounds_by_enzyme | get_compounds_by_pathway | get_compounds_by_reaction | get_drugs_by_pathway | get_elements_by_pathway | get_element_relations_by_pathway | get_enzymes_by_compound | get_enzymes_by_gene | get_enzymes_by_glycan | get_enzymes_by_pathway | get_enzymes_by_reaction | get_genes_by_enzyme | get_genes_by_ko | get_genes_by_ko_class | get_genes_by_motifs | get_genes_by_organism | get_genes_by_pathway | get_glycans_by_enzyme | get_glycans_by_pathway | get_glycans_by_reaction | get_html_of_colored_pathway_by_elements | get_html_of_colored_pathway_by_objects | get_html_of_marked_pathway_by_objects | get_kos_by_pathway | get_ko_by_gene | get_ko_by_ko_class | get_linkdb_between_databases | get_linkdb_by_entry | get_linked_pathways | get_motifs_by_gene | get_number_of_genes_by_organism | get_paralogs_by_gene | get_pathways_by_compounds | get_pathways_by_drugs | get_pathways_by_enzymes | get_pathways_by_genes | get_pathways_by_glycans | get_pathways_by_kos | get_pathways_by_reactions | get_reactions_by_compound | get_reactions_by_enzyme | get_reactions_by_glycan | get_reactions_by_pathway | get_references_by_pathway | get_reverse_best_neighbors_by_gene | list_databases | list_ko_classes | list_organisms | list_pathways | mark_pathway_by_objects | search_compounds_by_composition | search_compounds_by_mass | search_compounds_by_name | search_compounds_by_subcomp | search_drugs_by_composition | search_drugs_by_mass | search_drugs_by_name | search_drugs_by_subcomp | search_glycans_by_composition | search_glycans_by_kcam | search_glycans_by_mass | search_glycans_by_name |

1 input | 1 output

Part of Service: KEGG

Converts external IDs to KEGG IDs.External database supported: NCBI GI, NCBI GeneID, GenBank , UniGene , OMIM. Corresponding Database prefix: ncbi-gi:, ncbi-geneid:, genbank: ,unigene: , uniprot: , omim:

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1 input | 1 output

Part of Service: KEGG

bfind is used for searching entries by keywords. User needs to specify a database from those which are supported by DBGET system before keywords. Number of keywords given at a time is restricted up to 100.Database supported are available at http://www.genome.jp/dbget/

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1 input | 1 output

Part of Service: KEGG

Retrieve database entries specified by a list of entry_id. Number of entry_id retrieves at a time is restricted up to 100.

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1 input | 1 output

Part of Service: KEGG

Show the version information of a specificied database

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1 input | 1 output

Part of Service: KEGG

Retrieve definitions of given database entries available on GenomeNet database.The list of all databases available on GenomeNet can be viewed at: http://www.genome.jp/dbget/ . Number of entries given at a time is restricted up to 100.

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color_pathway_by_elements

4 inputs | 1 output

Part of Service: KEGG

Color the objects (rectangles and circles on a pathway map) corresponding to the given'element_id_list'with the specified colors and return the URL of the colored image.

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color_pathway_by_objects

4 inputs | 1 output

Part of Service: KEGG

Color the given objects on the pathway map with the specified colors and return the URL of the colored image. In the KEGG pathway maps, a gene or enzyme is represented by a rectangle and a compound is shown as a small circle.

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convert_mol_to_kcf

1 input | 1 output

Part of Service: KEGG

Convert a MOL format (molecular format) into the KCF (KEGG Chemical Function) format.

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get_best_best_neighbors_by_gene

3 inputs | 1 output

Part of Service: KEGG

Search the best-best neighbor of a gene in all organisms

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get_best_neighbors_by_gene

3 inputs | 1 output

Part of Service: KEGG

Search the best neighbor of a gene in all organisms

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get_compounds_by_enzyme

1 input | 1 output

Part of Service: KEGG

Retrieve all compounds which have a link to a given enzyme_id

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get_compounds_by_pathway

1 input | 1 output

Part of Service: KEGG

Search all compounds on a specified pathway.

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get_compounds_by_reaction

1 input | 1 output

Part of Service: KEGG

Retrieve all compounds which have a link to a given reaction_id

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get_drugs_by_pathway

1 input | 1 output

Part of Service: KEGG

Retrieves all drugs ids on the specified pathway.

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get_elements_by_pathway

1 input | 1 output

Part of Service: KEGG

Search all objects on specified pathway

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get_element_relations_by_pathway

1 input | 1 output

Part of Service: KEGG

Search all objects and relations on specified pathway

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get_enzymes_by_compound

1 input | 1 output

Part of Service: KEGG

Retrieve all enzymes which have a link to a given compound_id

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get_enzymes_by_gene

1 input | 1 output

Part of Service: KEGG

Retrieve all the EC numbers which are assigned to a given gene.

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get_enzymes_by_glycan

1 input | 1 output

Part of Service: KEGG

Retrieve all enzymes which have a link to a given glycan_id

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get_enzymes_by_pathway

1 input | 1 output

Part of Service: KEGG

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none

get_enzymes_by_reaction

1 input | 1 output

Part of Service: KEGG

Retrieve all enzymes which have a link to a given reaction_id

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get_genes_by_enzyme

2 inputs | 1 output

Part of Service: KEGG

Retrieve all genes of a given organism and enzyme_id

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get_genes_by_ko

2 inputs | 1 output

Part of Service: KEGG

Retrieve all genes of the specified organism which belong to a given ko_id.

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get_genes_by_ko_class

4 inputs | 1 output

Part of Service: KEGG

Retrieve all genes of a specified organism which are classified under a given ko_class_id.

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get_genes_by_motifs

3 inputs | 1 output

Part of Service: KEGG

Search all genes which contains a specified motifs

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get_genes_by_organism

3 inputs | 1 output

Part of Service: KEGG

Retrieve a specified number of genes of a given organism

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get_genes_by_pathway

1 input | 1 output

Part of Service: KEGG

Search all genes on the specified pathway. Organism name is given by the name of the pathway map.

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get_glycans_by_enzyme

1 input | 1 output

Part of Service: KEGG

Retrieve all glycans which have a link to a given enzyme_id.

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get_glycans_by_pathway

1 input | 1 output

Part of Service: KEGG

Search all glycans on a specified pathway

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get_glycans_by_reaction

1 input | 1 output

Part of Service: KEGG

Retrieve all glycans which have a link to a given reaction_id.

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get_html_of_colored_pathway_by_elements

4 inputs | 1 output

Part of Service: KEGG

Color the objects corresponding to the given 'element_id_list' on the pathway map with the specified colors and return the URL of the HTML containing the colored image as a clickable map. HTML version of the 'color_pathway_by_elements' method.

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get_html_of_colored_pathway_by_objects

4 inputs | 1 output

Part of Service: KEGG

Color given objects on the pathway map with the specified colors and return the URL of the HTML containing the colored image as a clickable map. It is the HTML version of the 'color_pathway_by_object' service.

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get_html_of_marked_pathway_by_objects

2 inputs | 1 output

Part of Service: KEGG

Mark given objects on a given pathway map and return the URL of the HTML with the generated image as a clickable map. It is the HTML version of the'mark_pathway_by_objects'service.

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get_kos_by_pathway

1 input | 1 output

Part of Service: KEGG

Retrieve all KOs on the specified pathway

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1 input | 1 output

Part of Service: KEGG

Search all KOs id to which a given genes_id belongs

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get_ko_by_ko_class

1 input | 1 output

Part of Service: KEGG

Return all KOs which belong to a given ko_class_id.

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get_linkdb_between_databases

4 inputs | 1 output

Part of Service: KEGG

Retrieve all links between entries among the given two KEGG databases. eg. KEGG GENES and KEGG PATHWAY

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get_linkdb_by_entry

4 inputs | 1 output

Part of Service: KEGG

Retrieve the database entries linked from the user specified database entry.For example the user can get the entries of KEGG/PATHWAY database linked from the entry'eco:b0002'

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get_linked_pathways

1 input | 1 output

Part of Service: KEGG

Retrieve all pathways which are linked from a given pathway_id.

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get_motifs_by_gene

2 inputs | 1 output

Part of Service: KEGG

Search motifs in a specified database for a specified gene.

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get_number_of_genes_by_organism

1 input | 1 output

Part of Service: KEGG

Get the number of genes coded in a specified organism's genome.

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get_paralogs_by_gene

3 inputs | 1 output

Part of Service: KEGG

Search paralogous genes of the given gene in the same organism

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get_pathways_by_compounds

1 input | 1 output

Part of Service: KEGG

Search all pathways which include all the given compounds

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get_pathways_by_drugs

1 input | 1 output

Part of Service: KEGG

Retrieve all pathways which include all the given drugs.

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get_pathways_by_enzymes

1 input | 1 output

Part of Service: KEGG

Search all pathways which include all the given enzymes.

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get_pathways_by_genes

1 input | 1 output

Part of Service: KEGG

Search all pathways which include all the given genes.

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get_pathways_by_glycans

1 input | 1 output

Part of Service: KEGG

Search all pathways which include all the given glycans

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get_pathways_by_kos

2 inputs | 1 output

Part of Service: KEGG

Retrieve all pathways_id of organisms which include all the given KO IDs.

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get_pathways_by_reactions

1 input | 1 output

Part of Service: KEGG

Retrieve all pathways which include all given reaction_ids.

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get_reactions_by_compound

1 input | 1 output

Part of Service: KEGG

Retrieve all reactions which have a link to a given compound_id

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get_reactions_by_enzyme

1 input | 1 output

Part of Service: KEGG

Retrieve all reactions which have a link to a given enzyme_id

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get_reactions_by_glycan

1 input | 1 output

Part of Service: KEGG

Retrieve all reactions which have a link to a given glycan_id

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get_reactions_by_pathway

1 input | 1 output

Part of Service: KEGG

Retrieve all reactions on the specified pathway.

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get_references_by_pathway

1 input | 1 output

Part of Service: KEGG

Retrieve all PubMed IDs of the references associated with the specified pathway.

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get_reverse_best_neighbors_by_gene

3 inputs | 1 output

Part of Service: KEGG

Search reverse best neighbors in all organisms.

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0 inputs | 1 output

Part of Service: KEGG

Return a list of database names and definitions available on the GenomeNet

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list_ko_classes

1 input | 1 output

Part of Service: KEGG

List all KO classes related to a given ko_class_id

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0 inputs | 1 output

Part of Service: KEGG

List up the organisms in the KEGG/GENES database. 'org' code and the organism's full name is returned in the Definition data type.

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1 input | 1 output

Part of Service: KEGG

List up the pathway maps of the given organism in the KEGG/PATHWAY database.

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mark_pathway_by_objects

2 inputs | 1 output

Part of Service: KEGG

Mark given objects on a given pathway map and return the URL of the generated image.

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search_compounds_by_composition

1 input | 1 output

Part of Service: KEGG

Retrive a list of compounds containing elements indicated by the composition. Order of the elements is insensitive.

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search_compounds_by_mass

2 inputs | 1 output

Part of Service: KEGG

Retrieve a list of compounds having the molecular weight around 'mass' with some ambiguity (range)

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search_compounds_by_name

1 input | 1 output

Part of Service: KEGG

Retrieve a list of compounds having the specified name

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search_compounds_by_subcomp

3 inputs | 1 output

Part of Service: KEGG

Retrieve a list of compounds with the alignment having common sub-structure calculated by the subcomp program.

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search_drugs_by_composition

1 input | 1 output

Part of Service: KEGG

Retrieves a list of drugs ids containing elements indicated by the composition. Order of the elements is insensitive.

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search_drugs_by_mass

2 inputs | 1 output

Part of Service: KEGG

Retrieves a list of drugs ids having the molecular weight around 'mass' with some ambiguity (range).

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search_drugs_by_name

1 input | 1 output

Part of Service: KEGG

Retrieves a list of drugs ids having the specified name.

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search_drugs_by_subcomp

3 inputs | 1 output

Part of Service: KEGG

Retrieves a list of drugs with the alignment having common sub-structure calculated by the subcomp program. You can obtain a MOL formatted structural data of matched drugs using 'bget' service with the "-f m" option to confirm the alignment.

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search_glycans_by_composition

1 input | 1 output

Part of Service: KEGG

Retrieve a list of glycans containing sugars indicated by the composition. Order of the sugars (in parenthesis with number) is insensitive.

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search_glycans_by_kcam

5 inputs | 1 output

Part of Service: KEGG

Retrieve a list of glycans with the alignment having common sub-structure calculated by the KCaM program (KEGG Carbohydrate Matcher).

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search_glycans_by_mass

2 inputs | 1 output

Part of Service: KEGG

Retrieve a list of glycans having a molecular weight around 'mass' with some ambiguity (range)

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search_glycans_by_name

1 input | 1 output

Part of Service: KEGG

Retrieve a list of glycans having a specified name

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Archived Operations (0)

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Monitored Since : Thursday June 11 , 2009

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Monitored Since : Thursday June 11 , 2009

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News

Info Updates from WSDL

WSDL Location: http://soap.genome.jp/KEGG.wsdl

About 1 year ago 74 updates

The namespace of the SOAP service has been updated from '' to 'SOAP/KEGG'.
A new port called 'KEGGPort' was found.
The parent port for the operation 'list_databases' has been updated to 'KEGGPort'.
The parent port for the operation 'list_organisms' has been updated to 'KEGGPort'.
The parent port for the operation 'list_pathways' has been updated to 'KEGGPort'.
The parent port for the operation 'list_ko_classes' has been updated to 'KEGGPort'.
The parent port for the operation 'binfo' has been updated to 'KEGGPort'.
The parent port for the operation 'bget' has been updated to 'KEGGPort'.
The parent port for the operation 'bfind' has been updated to 'KEGGPort'.
The parent port for the operation 'btit' has been updated to 'KEGGPort'.
The parent port for the operation 'bconv' has been updated to 'KEGGPort'.
The parent port for the operation 'get_linkdb_by_entry' has been updated to 'KEGGPort'.
The parent port for the operation 'get_best_neighbors_by_gene' has been updated to 'KEGGPort'.
The parent port for the operation 'get_best_best_neighbors_by_gene' has been updated to 'KEGGPort'.
The parent port for the operation 'get_reverse_best_neighbors_by_gene' has been updated to 'KEGGPort'.
The parent port for the operation 'get_paralogs_by_gene' has been updated to 'KEGGPort'.
The parent port for the operation 'get_motifs_by_gene' has been updated to 'KEGGPort'.
The parent port for the operation 'get_genes_by_motifs' has been updated to 'KEGGPort'.
The parent port for the operation 'get_ko_by_gene' has been updated to 'KEGGPort'.
The parent port for the operation 'get_ko_by_ko_class' has been updated to 'KEGGPort'.
The parent port for the operation 'get_genes_by_ko' has been updated to 'KEGGPort'.
The parent port for the operation 'get_genes_by_ko_class' has been updated to 'KEGGPort'.
The parent port for the operation 'get_elements_by_pathway' has been updated to 'KEGGPort'.
The parent port for the operation 'get_element_relations_by_pathway' has been updated to 'KEGGPort'.
The parent port for the operation 'color_pathway_by_elements' has been updated to 'KEGGPort'.
The parent port for the operation 'get_html_of_colored_pathway_by_elements' has been updated to 'KEGGPort'.
The parent port for the operation 'mark_pathway_by_objects' has been updated to 'KEGGPort'.
The parent port for the operation 'color_pathway_by_objects' has been updated to 'KEGGPort'.
The parent port for the operation 'get_html_of_marked_pathway_by_objects' has been updated to 'KEGGPort'.
The parent port for the operation 'get_html_of_colored_pathway_by_objects' has been updated to 'KEGGPort'.
The parent port for the operation 'get_genes_by_pathway' has been updated to 'KEGGPort'.
The parent port for the operation 'get_enzymes_by_pathway' has been updated to 'KEGGPort'.
The parent port for the operation 'get_reactions_by_pathway' has been updated to 'KEGGPort'.
The parent port for the operation 'get_pathways_by_genes' has been updated to 'KEGGPort'.
The parent port for the operation 'get_pathways_by_enzymes' has been updated to 'KEGGPort'.
The parent port for the operation 'get_pathways_by_reactions' has been updated to 'KEGGPort'.
The parent port for the operation 'get_linked_pathways' has been updated to 'KEGGPort'.
The parent port for the operation 'get_genes_by_enzyme' has been updated to 'KEGGPort'.
The parent port for the operation 'get_enzymes_by_gene' has been updated to 'KEGGPort'.
The parent port for the operation 'get_enzymes_by_reaction' has been updated to 'KEGGPort'.
The parent port for the operation 'get_reactions_by_enzyme' has been updated to 'KEGGPort'.
The parent port for the operation 'get_genes_by_organism' has been updated to 'KEGGPort'.
The parent port for the operation 'get_number_of_genes_by_organism' has been updated to 'KEGGPort'.
The parent port for the operation 'get_reactions_by_glycan' has been updated to 'KEGGPort'.
The parent port for the operation 'get_reactions_by_compound' has been updated to 'KEGGPort'.
The parent port for the operation 'get_enzymes_by_glycan' has been updated to 'KEGGPort'.
The parent port for the operation 'get_enzymes_by_compound' has been updated to 'KEGGPort'.
The parent port for the operation 'get_pathways_by_compounds' has been updated to 'KEGGPort'.
The parent port for the operation 'get_pathways_by_glycans' has been updated to 'KEGGPort'.
The parent port for the operation 'get_compounds_by_pathway' has been updated to 'KEGGPort'.
The parent port for the operation 'get_glycans_by_pathway' has been updated to 'KEGGPort'.
The parent port for the operation 'get_compounds_by_reaction' has been updated to 'KEGGPort'.
The parent port for the operation 'get_glycans_by_reaction' has been updated to 'KEGGPort'.
The parent port for the operation 'get_compounds_by_enzyme' has been updated to 'KEGGPort'.
The parent port for the operation 'get_glycans_by_enzyme' has been updated to 'KEGGPort'.
The parent port for the operation 'convert_mol_to_kcf' has been updated to 'KEGGPort'.
The parent port for the operation 'get_kos_by_pathway' has been updated to 'KEGGPort'.
The parent port for the operation 'get_pathways_by_kos' has been updated to 'KEGGPort'.
The parent port for the operation 'search_compounds_by_name' has been updated to 'KEGGPort'.
The parent port for the operation 'search_glycans_by_name' has been updated to 'KEGGPort'.
The parent port for the operation 'search_compounds_by_composition' has been updated to 'KEGGPort'.
The parent port for the operation 'search_compounds_by_mass' has been updated to 'KEGGPort'.
The parent port for the operation 'search_glycans_by_mass' has been updated to 'KEGGPort'.
The parent port for the operation 'search_glycans_by_composition' has been updated to 'KEGGPort'.
The parent port for the operation 'search_compounds_by_subcomp' has been updated to 'KEGGPort'.
The parent port for the operation 'search_glycans_by_kcam' has been updated to 'KEGGPort'.
The parent port for the operation 'get_linkdb_between_databases' has been updated to 'KEGGPort'.
The parent port for the operation 'search_drugs_by_name' has been updated to 'KEGGPort'.
The parent port for the operation 'search_drugs_by_composition' has been updated to 'KEGGPort'.
The parent port for the operation 'search_drugs_by_mass' has been updated to 'KEGGPort'.
The parent port for the operation 'search_drugs_by_subcomp' has been updated to 'KEGGPort'.
The parent port for the operation 'get_references_by_pathway' has been updated to 'KEGGPort'.
The parent port for the operation 'get_drugs_by_pathway' has been updated to 'KEGGPort'.
The parent port for the operation 'get_pathways_by_drugs' has been updated to 'KEGGPort'.

[ link to these changes ]

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The BioCatalogue project is funded by the BBSRC (BB/F01046X/1, BB/F010540/1)

Copyright (c) 2008 - 2011 The University of Manchester and the European Bioinformatics Institute (EMBL-EBI)

Codebase license: BSD License
Content license: Creative Commons Public Domain License
System version: 1.0.1
API version: 1.2.0b