KEGG MEDICUS
2020/09/08Web 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
2.1 README
| Data name | README |
|---|---|
| Description of data contents | HTML file to describe "KEGG MEDICUS" data. |
| File | README_e.html (English) |
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 item | Description |
|---|---|
| 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. |
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 item | Description |
|---|---|
| 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. |
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 (1.64 MB) |
Data items are the following:
| Data item | Description |
|---|---|
| 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. |
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 (205 KB) |
Data items are the following:
| Data item | Description |
|---|---|
| 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. |
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. |
| File | kegg_medicus_network.csv.zip (310 KB) |
Data items are the following:
| Data item | Description |
|---|---|
| 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. |
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. |
| File | kegg_medicus_map.csv.zip (16.6 KB) |
Data items are the following:
| Data item | Description |
|---|---|
| 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. |
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 (87.3 KB) |
Data items are the following:
| Data item | Description |
|---|---|
| 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. |
3. License
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.
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:
- freely access part or whole of this database, and acquire data;
- freely redistribute part or whole of the data from this database; and
- 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:
- 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.
- 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).
- 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.
4. Update History
| Date | Update contents |
|---|---|
| 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. |
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
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/