KEGG MEDICUS

2021/08/17

Web Site: http://www.kegg.jp/kegg/medicus/

The database of an integrated information resource of diseases, drugs, and health-related substances, aiming to bring the genomic revolution to society.

README Content

  1. Database Component
  2. Data Description
  3. License
  4. Update History
  5. Literature
  6. Contact address

1. Database Component

  1. README
  2. Drug
  3. Environ
  4. Disease
  5. DGroup
  6. Network
  7. Network Map
  8. Variant
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2. Data Description

2.1 README

Data name README
Description of data contents HTML file to describe "KEGG MEDICUS" data.
File README_e.html (English)
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2.2 Drug

Data name Drug
Description of data contents

KEGG DRUG is a comprehensive drug information resource for approved drugs in Japan, USA, and Europe unified based on the chemical structures and/or the chemical components, and associated with target, metabolizing enzyme, and other molecular interaction network information.
File kegg_medicus_drug_en.csv.zip (7.9 MB)

Data items are the following:
Data itemDescription
D number Unique identifier of the KEGG DRUG entry.
Classification Shown when the drug is Mixture, Crude or Formula.
Name The generic name and selected trade names of the drug.
Component Component
Formula The molecular formula of the drug structure.
Exact mass The exact mass of the drug structure.
Mol weight The molecular weight of the drug structure.
Structural formula Chemical structural formula. (Simple search only)
Sequence Sequence data when the drug is a peptide or a polyketide.
Sequence type Sequence type (NRP, PK, Peptide).
Source Biological source when the drug is derived from a natural product.
Upper DGroup Upper DGroup.
Remark This field contains Therapeutic category, ATC code, and also identical entries in the COMPOUND database.
Efficacy Efficacy and activity of the drug.
Disease The desease healed by the drug.
Comment Free text comment.
Target Target information of the drug with appropriate links to human genes and KEGG Orthology.
Metabolism Information about drug metabolizing enzyme and transporter.
Interaction Other interaction information, including CYP induction and inhibition, genomic biomarkers, etc.
Other DBs Links to outside databases.
KCF data The KCF (KEGG Chemical Function) representation of the chemical structure can be displayed here. It contains the KEGG atom type information for use in chemical structure comparisons.
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2.3 Environ

Data name Environ
Description of data contents

KEGG ENVIRON is a collection of crude drugs, essential oils, and other health-promoting substances, which are mostly natural products. KEGG ENVIRON supplements KEGG DRUG that contains officially approved drugs.
File kegg_medicus_environ_en.csv.zip (73.2 KB)

Data items are the following:
Data itemDescription
E number Unique identifier of the KEGG ENVIRON entry.
Name Name of the natural product.
Category Category (Crude drug, Essential oil or Medicinal herb).
Component Chemical components and corresponding C/D numbers.
Source Biological source with links to NCBI taxonomy IDs.
Remark D number of the same crude drug, etc. when available.
Comment Free text comment.
Other DBs Links to outside databases.
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2.4 Disease

Data name Disease
Description of data contents

The KEGG DISEASE database is a collection of human diseases, each represented as a list of disease genes, environmental factors, pathogens, etc. with links to corresponding KEGG objects, thus enabling computational processing and analysis of disease data.
File kegg_medicus_disease_en.csv.zip (2.5 MB)

Data items are the following:
Data itemDescription
H number Unique identifier of the KEGG DISEASE entry.
Name Disease names including alternative names.
Sub Group Sub group of the disease
Super Group Super group of the disease [H number]
Description A brief summary of the disease.
Category The category of the disease.
Network The network whici contains the disease
Gene Known disease genes with links to the KEGG GENES and KO databases.
Pathogen Known pathogens with links to the KEGG GENOME and VGENOME databases.
Env factor Known other environmental factors with links to the KEGG COMPOUND and other databases.
Carcinogen Known carcinogens with links to the KEGG COMPOUND and other databases.
Drug Typical therapeutic drugs with links to the KEGG DRUG database.
Comment Free text comment.
Other DBs Links to outside databases.
Reference Reference information.
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2.5 DGroup

Data name DGroup
Description of data contents

KEGG DGROUP is a database for structurally and functionally related groups of drugs, especially from the viewpoint of drug interaction networks.
File kegg_medicus_dgroup_en.csv.zip (525 KB)

Data items are the following:
Data itemDescription
DG number Unique identifier of the KEGG DGROUP entry.
Classification Shown when the group is "Chemical".
Name Name of the DGroup.
Stem Stem of drugs in the DGroup.
Structural formula Chemical structural formula. (Simple search only)
Member List of drugs and D numbers in the DGroup.
Upper DGroup Upper DGroup.
Remark ATC code.
Comment Free text comment.
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2.6 Network

Data name Network
Description of data contents

KEGG NETWORK is a database to capture knowledge of diseases and drugs in terms of perturbed molecular networks. It accumulates variations of molecular interaction/reaction networks in terms of "network variation maps" consisting of "network elements". Each network element is identified by the N number.
In this archive, "Network Map" is divided into another data.
File kegg_medicus_network.csv.zip (666 KB)

Data items are the following:
Data itemDescription
N number Unique identifier of the KEGG NETWORK entry (Network).
Name Name of the molecular network.
Definition Definition of the molecular network.
Definition expressed by ID Above definition is expressed by element ID.
Upper group Maps contains the molecular network.
Type Molecular network type
Disease Related disease.
Gene Genes contained in the molecular network.
Variant Variants contained in the molecular network.
Metabolite Metabolites contained in the molecular network.
Perturbant Perturbants contained in the molecular network.
Reference Reference information.
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2.7 Network Map

Data name Network Map
Description of data contents

KEGG NETWORK is a database to capture knowledge of diseases and drugs in terms of perturbed molecular networks. It accumulates variations of molecular interaction/reaction networks in terms of "network variation maps" consisting of "network elements". Each map is identified by the nt number.
In this archive, "Network" is divided into another data.
File kegg_medicus_map.csv.zip (52 KB)

Data items are the following:
Data itemDescription
nt number Unique identifier of the KEGG NETWORK entry (Network Map).
Name Name of the molecular network.
Map name Name of the network map.
Disease Related disease.
Other DBs Links to outside databases.
Member Molecular networks contained in the map.
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2.8 Variant

Data name Variant
Description of data contents

The KEGG VARIANT database is a collection of human gene variants that can be associated with human diseases and drugs. Each variant is identified by the human gene ID followed by "v" and a number.
File kegg_medicus_variant.csv.zip (168 KB)

Data items are the following:
Data itemDescription
Variant ID Unique identifier of the KEGG VARIANT entry.
Name Name of the variant.
Gene Gene name
Organism Organism
Variation Variation names and links to outside databases.
Map Molocular network maps which contain the variant.
Network Molocular network which contain the variant.
Reference Reference information.
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3. License

Last updated : 2017/12/15

You may use this database in compliance with the terms and conditions of the license described below. The license specifies the license terms regarding the use of this database and the requirements you must follow in using this database.

 

Creative Commons License

The license for this database is specified in the Creative Commons Attribution-Share Alike 4.0 International.
If you use data from this database, please be sure attribute this database as follows: "KEGG MEDICUS © Minoru Kanehisa ( Institute for Chemical Research, Kyoto University) licensed under CC Attribution-Share Alike 4.0 International".

The summary of the Creative Commons Attribution-Share Alike 4.0 International is found here.

With regard to this database, you are licensed to:

  1. freely access part or whole of this database, and acquire data;
  2. freely redistribute part or whole of the data from this database; and
  3. freely create and distribute database and other adapted materials based on part or whole of the data from this database,

under the license, as long as you comply with the following conditions:

  1. You must attribute this database in the manner specified by the author or licensor when distributing part or whole of this database or any adapted material.
  2. You must distribute any adapted material based on part or whole of the data from this database under CC Attribution-Share Alike 4.0 (or later), or CC Attribution-Share Alike Compatible License (the list is here).
  3. You need to contact the Licensor shown below to request a license for use of this database or any part thereof not licensed under the license.

Institute for Chemical Research, Kyoto University
Uji, Kyoto 611-0011, Japan
TEL: +81-774-38-4521
E-mail: http://www.genome.jp/feedback/

About Providing Links to This Database

You can freely provide links to all contents in this database. But, contents might be changed without notice.

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4. Update History

DateUpdate contents
2021/08/17
  • Drug
  • Disease
  • Dgroup
  • Network
  • Map
  • Variant
    • are updated (same as original data at 2021/08/17)
    2020/09/01 "Drug" data are updated. Orignal data are same as V3 (2020/08/04).
    2020/08/04 Archive V3 is released.
    2017/12/15 Archive V2 is released.
    2014/05/09 KEGG MEDICUS English archive site is opened.(Archive V1)
    2010/10/01 KEGG MEDICUS (http://www.kegg.jp/kegg/medicus/) is opened.
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    5. Literature

    Kanehisa, M., Goto, S., Furumichi, M., Tanabe, M., Hirakawa, M.
    KEGG for representation and analysis of molecular networks involving diseases and drugs.
    Nucleic Acids Res./ 2010/ 38, D355-D360
    PMID: 19880382

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    6. Contact address

    When you have any question about "KEGG MEDICUS", contact the following:

    Institute for Chemical Research, Kyoto University
    Uji, Kyoto 611-0011, Japan
    TEL: +81-774-38-4521
    http://www.genome.jp/feedback/

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