SSBD
2016/07/25Web Site: http://ssbd.qbic.riken.jp/
HTTPS Site: https://dbarchive.biosciencedbc.jp/data/ssbd/
SSBD isthe database of collecting and sharing quantitative data of biological dynamics , which are generated from experimental measurement or computer simulation.
README Content
1. Database Component
2. Data Description
2.1 README
| Data name | README |
| Description of data contents | HTML file to describe "SSBD" data. |
| File | README_e.html(English) |
2.2 BDML Datasets
| Data name | BDML Datasets |
| Description of data contents | Dataset summary and the resource from which it is derived |
| File | ssbd_bdml_dataset.zip (2.0KB) |
Data items are the following:
| Data item | Description |
|---|---|
| Organism | Name of a targeted organism. |
| Datatype | Describes specific type of data that was represented in the BDML file |
| Basedon | Speficifies whether the data was gathered from an in vivo measurement or from a computer simulation. |
| Contributor | Names of contributors who produced/collected the data. |
| Number of BDML-files | Number of BDML-files |
| Contact Information | Contact information for the BDML file. |
| Summary of methods | Methods/procedures used to obtain the data described in the BDML file. |
| PubMed ID | PubMed ID of the original published paper. |
| License | License information of the BDML file. |
| Data Scale (XYZ,T) | Scale and unit of coordinates and time. |
| Dataset Description | Description about the dataset. |
2.3 BDML Metadata
| Data name | BDML Metadata |
| Description of data contents | Meta-information of quantitative data in BDML format |
| File | ssbd_bdml_metadata.zip (467KB) |
Data items are the following:
| Data item | Description |
|---|---|
| Title | Title of the BDML file. |
| Description | Detailed information about the data described in the BDML file |
| Organism | Name of a targeted organism. |
| Datatype | Describes specific type of data that was represented in the BDML file |
| Local ID | Internal or local identifier used to identify the BDML file. |
| Basedon | Speficifies whether the data was gathered from an in vivo measurement or from a computer simulation. |
| Contributor | Names of contributors who produced/collected the data. |
| Contact Information | Contact information for the BDML file. |
| Summary of methods | Methods/procedures used to obtain the data described in the BDML file. |
| PubMed ID | PubMed ID of the original published paper. |
| License | License information of the BDML file. |
| Schema | Version of BDML schema. |
| BDML ID | Unique ID of the BDML file. |
| Data Scale (XYZ,T) | Scale and unit of coordinates and time. |
| Source | A URL link to original sources such as microscope images for an experimental measurement or files of mathematical model for a computer simulation. |
| BDML file | A URL link to download a BDML file |
| PDPML file | A URL link to download a PDPML file |
| SSBD web page | A URL link to view a summay page |
| SSBD-OMERO web page | A URL link to view a set of microscopy images |
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: "SSBD © Shuichi Onami (RIKEN Quantitative Biology Center, Laboratory for Developmental Dynamics) 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.
Shuichi Onami
RIKEN Quantitative Biology Center
2-2-3 Minatojima-minamimachi, Chuo-ku, Kobe 650-0047, Japan,
E-mail: sonami[at]riken[dot]jp
4. Update History
| Date | Update contents |
|---|---|
| 2016/07/25 | SSBD English archive site is opened. |
| 2013/09/03 | SSBD (http://ssbd.qbic.riken.jp/) is opened. |
5. Literature
-6. Contact address
When you have any question about "SSBD", contact the following:
Shuichi Onami
RIKEN Quantitative Biology Center
2-2-3 Minatojima-minamimachi, Chuo-ku, Kobe 650-0047, Japan,
E-mail: sonami[at]riken[dot]jp