AT Atlas
2013/12/16HTTPS Site: https://dbarchive.biosciencedbc.jp/data/at_atlas/
The database of graphical descriptions of techniques developed in the Targeted Proteins Research Program.
README Content
1. Database Component
2. Data Description
2.1 README
| Data name | README |
| Description of data contents | HTML file to describe "AT Atlas" data. |
| File | README_e.html(English) |
2.2 Main
| Data name | Main |
| Description of data contents | It is a summary table of achievements in the Technology Development projects of the Targeted Proteins Research Program (TPRP); details of the developed technology, reference information etc. |
| File | at_atlas_en.zip (3.75 KB) |
| Data item | Description |
|---|---|
| ID | ID of the subject (There are one to six technological subjects in a project.) |
| Project ID | ID of the project |
| Subject | Subject in the project |
| Project Theme | Theme of the project |
| Principal Investigator | Principal Investigator of the project |
| Affiliation | Affiliation of the project |
| Backgrounds | Backgrounds of the subject |
| Highlights | Highlights of the subject |
| Outline | Outline of the protocol |
| Application | Project ID (in TPRP) that carried out using the protocol |
| Article | Related paper (In the cases of multiple items, they are arranged in the same order as PubMed ID.) |
| PubMed ID | PubMed ID (In the cases of multiple items, they are arranged in the same order as Article.) |
| CSML File | Name of the diagram data (CMSL file) (Linked to the diagram data in the Simple Search site.) |
2.3 Protein
| Data name | Protein |
| Description of data contents | It is a table of proteins whose structures were solved using method(s) developed in the Technology Development projects of the Targeted Proteins Research Program (TPRP). |
| File | at_atlas_protein.zip (1.13 KB) |
| Data item | Description |
|---|---|
| Project ID | Project ID |
| PDB ID | PDB ID in PDBj |
| Protein Name | Name of the protein |
2.4 PREIMS
| Data name | PREIMS |
| Description of data contents | It is a table of protocols that were developed in the Technology Development projects of the Targeted Proteins Research Program (TPRP). |
| File | at_atlas_preims.zip (5.09 KB) |
| Data item | Description |
|---|---|
| Project ID | Project ID |
| Protocol ID | Protocol ID in PREIMS (PRotein Experimental Information Management Sysmtem) |
| Protocol Name | Name of the protocol |
| Category | Category of the protocol |
| Author | Author of the protocol |
2.5 Graphical abstract
| Data name | Graphical abstract |
| Description of data contents | Graphical abstracts (flow chart) in the Technology Development projects of the Targeted Proteins Research Program (TPRP), which is drawn by use of Cell Illustrator. The graphics are in CSML format. One project includes one to six subject(s), and there is a CSML file for every subject. |
| File | at_atlas_csml.zip (1.22 MB) |
About CSML format file
- For CSML (Cell System Markup Language), see also the CSML website.
- CSML files may be graphically viewed on Cell Illustrator Online Player. These files may also be graphically edited and simulated at Cell Illustrator Online. For these pieces of software, see also the Cell Illustrator website or the Cell Illustrator Online website.
2.6 Image File
| Data name | Image File |
| Description of data contents | Graphical abstracts (in PNG format) for the Technology Development projects of the Targeted Proteins Research Program (TPRP). One project includes one to six subject(s), and there is a PNG file originally drawn by Cell Illustrator for every subject. |
| File | at_atlas_png.zip (5.37 MB) |
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 2.1 Japan.
If you use data from this database, please be sure attribute this database as follows: "AT Atlas © Targeted Proteins Research Program licensed under CC Attribution-Share Alike 2.1 Japan".
The summary of the Creative Commons Attribution-Share Alike 2.1 Japan 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 derivative works 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 derivative work.
- You must distribute any derivative work based on part or whole of the data from this database under the license.
- 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.
Yata 1111, Mishima, Shizuoka 411-8540, JAPAN
Platform for Drug Discovery, Informatics, and Structural Life Science
Research Organization of Information and Systems
National Institute of Genetics
E-mail: p4d-info[at]nig[dot]ac[dot]jp
4. Update History
| Date | Update contents |
|---|---|
| 2013/12/16 | The email address in the contact information is corrected. |
| 2013/11/19 | AT Atlas English archive site is opened. |
| 2011/08 | AT Atlas (http://www.tanpaku.org/atatlas/) is opened. |
5. Literature
-6. Contact address
When you have any question about "AT Atlas", contact the following:
Yata 1111, Mishima, Shizuoka 411-8540, JAPAN
Platform for Drug Discovery, Informatics, and Structural Life Science
Research Organization of Information and Systems
National Institute of Genetics
Hideaki Sugawara
E-mail: p4d-info[at]nig[dot]ac[dot]jp