Search for Biomedical Data & Resources in Japan

Sagace markup schemas for biological databases


To database providers

We are trying to make Sagace a useful search engine by providing better search results for users. As one such effort, Sagace retrieves metadata for each database entry page, if they are stored in the microdata format. The obtained metadata will appear in the search results, and will help users judge the relevance of each hit.

If you wish to add microdata markups to your database and its individual entries, please use the following properties. These are an extension to the schema.org vocabulary. See also Examples and References to learn how to add microdata markups.

After adding markups to your web pages, you can check whether they will be properly recognized by Sagace with the online test tool Live Microdata.

Properties

Properties with underline are highly recommended for use.


Thing > CreativeWork > BiologicalDatabaseEntry

Properties for a biological database:

Property Expected Type Description
Properties from Thing
description Text A short description of the entry.
image URL URL of an image of the entry.
name Text The name of the entry.
url URL URL of the entry.
Properties from CreativeWork
alternativeHeadline Text A secondary title of the entry.
inLanguage Language The language of the content. Please use one of the language codes from the IETF BCP 47 standard.
dateCreated Date The date on which the content was created (in ISO 8601 date format).
dateModified Date The date on which the content was most recently modified (in ISO 8601 date format).
keywords Text The keywords/tags used to describe this content.
provider Person or Organization Specifies the person or organization that distributed the content.
Properties from WebPage
breadcrumb Text A set of links that can help a user understand and navigate a website hierarchy.
Original properties in BiologicalDatabaseEntry
entryID Text The identifier of the entry.
isEntryOf BiologicalDatabase Indicates the database to which the entry belongs.
taxonID Text The taxonomy identifier of the entry. Please use the NCBI Taxonomy ID.

Thing > CreativeWork > BiologicalDatabase

Properties for a biological database entry:

Property Expected Type Description
Properties from Thing
description Text A short description of the database.
image URL URL of an image of the database.
name Text The name of the database.
url URL URL of the database.
Properties from CreativeWork
alternativeHeadline Text A secondary title of the database.
inLanguage Language The language of the content. Please use one of the language codes from the IETF BCP 47 standard.
dateCreated Date The date on which the content was created (in ISO 8601 date format).
dateModified Date The date on which the content was most recently modified (in ISO 8601 date format).
keywords Text The keywords/tags used to describe this content.
provider Person or Organization Specifies the person or organization that distributed the content.
Properties from WebPage
breadcrumb Text A set of links that can help a user understand and navigate a website hierarchy.

Notes

  • You do not need to use all the properties. We recommend to use properties with underline; however, you are under no obligation to do so.
  • Properties in plural (such as keywords) can take multiple values. All the other properties can take only a single value.

Examples

Example 1

  • Original HTML:
<h1><a href="http://cellbank.nibio.go.jp/celldata/jcrb0225.htm">JCRB0225 [COLO320 DM]</a></h1>
Profile: Human colon carcinoma cell line with double minute chromosomes.
Tags: tumor, colon, adenocarcinoma
Date accepted: 08/27/1987
Animal: human
Scientific Name: Homo sapiens
<a href="http://cellbank.nibio.go.jp/pictures/clp01060.jpg">Cell Picture</a>
Availability: available
<a href="http://cellbank.nibio.go.jp/">JCRB Cell Bank</a>
<a href="http://www.nibio.go.jp/">National Institute of Biomedical Innovation (NIBIO)</a>
  • With microdata:
<div itemscope itemtype="http://schema.org/BiologicalDatabaseEntry">
 <h1><a itemprop="url" href="http://cellbank.nibio.go.jp/celldata/jcrb0225.htm"><span itemprop="entryID">JCRB0225</span> [<span itemprop="name">COLO320 DM</span>]</a></h1>
 Profile: <span itemprop="description">Human colon carcinoma cell line with double minute chromosomes.</span>
 Tags: <span itemprop="keywords">tumor</span>, <span itemprop="keywords">colon</span>, <span itemprop="keywords">adenocarcinoma</span>
 Date accepted: <meta itemprop="dateCreated" content="1987-08-27">08/27/1987
 Animal: human
 Scientific Name: <meta itemprop="taxonID" content="9606">Homo sapiens
 <a href="http://cellbank.nibio.go.jp/pictures/clp01060.jpg" itemprop="image">Cell Picture</a>
 Availability: available
 <span itemprop="isEntryOf" itemscope itemtype="http://schema.org/BiologicalDatabase"><a itemprop="url" href="http://cellbank.nibio.go.jp/"><span itemprop="name">JCRB Cell Bank</span></a></span>
 <span itemprop="provider" itemscope itemtype="http://schema.org/Organization"><a itemprop="url" href="http://www.nibio.go.jp/"><span itemprop="name">National Institute of Biomedical Innovation (NIBIO)</span></a></span>
</div>

Example 2

  • Original HTML:
<div id="header">
 <a href="http://cellbank.nibio.go.jp/">JCRB Cell Bank</a>
</div>
<div id="navi">
 <ul>
  <li><a href="category/rat">rat</a></li>
  <li><a href="category/kidney">kidney</a></li>
  <li><a>JCRB9067</a></li>
 </ul>
</div>
<div id="main">
 <h1><a href="http://cellbank.nibio.go.jp/celldata/jcrb9067.htm">JCRB9067 [NRK-49F]</a></h1>
 Profile: Fibroblastic clone of NRK (normal rat kidney) cells, useful for transformation assays, (Osbone-Mendel rat).
 Date accepted: 01/10/1987
 Animal: rat
 Scientific Name: Rattus norvegicus
</div>
<div id="footer">
 <a href="http://www.nibio.go.jp/">National Institute of Biomedical Innovation (NIBIO)</a>
</div>
  • With microdata:
<div itemscope itemtype="http://schema.org/BiologicalDatabaseEntry">
 <div id="header">
  <span itemprop="isEntryOf" itemscope itemtype="http://schema.org/BiologicalDatabase"><a itemprop="url" href="http://cellbank.nibio.go.jp/"><span itemprop="name">JCRB Cell Bank</span></a></span>
 </div>
 <div id="navi">
  <ul>
   <li><a href="category/rat"><span itemprop="keywords">rat</span></a></li>
   <li><a href="category/kidney"><span itemprop="keywords">kidney</span></a></li>
   <li><a>JCRB9067</a></li>
  </ul>
 </div>
 <div id="main">
  <h1><a itemprop="url" href="http://cellbank.nibio.go.jp/celldata/jcrb9067.htm"><span itemprop="entryID">JCRB9067</span> [<span itemprop="name">NRK-49F</span>]</a></h1>
  Profile: <span itemprop="description">Fibroblastic clone of NRK (normal rat kidney) cells, useful for transformation assays, (Osbone-Mendel rat).</span>
  Date accepted: <meta itemprop="dateCreated" content="1987-01-10">01/10/1987
  Animal: rat
  Scientific Name: <meta itemprop="taxonID" content="10116">Rattus norvegicus
 </div>
 <div id="footer">
  <span itemprop="provider" itemscope itemtype="http://schema.org/Organization"><a itemprop="url" href="http://www.nibio.go.jp/"><span itemprop="name">National Institute of Biomedical Innovation (NIBIO)</span></a></span>
 </div>
</div>

Example 3

  • Original HTML:
<div id="header">
 <a href="http://animal.nibio.go.jp/">Laboratory Animal Resource Bank</a>
</div>
<div id="topicPath">
 <a href="category/mouse">mouse</a> > <a href="category/lysosomaldisease">Lysosomal diseases</a> > <a href="category/gm1gangliosidosis">GM1 gangliosidosis</a> > <a>BKO</a>
</div>
<div id="main">
 <h1><a href="http://animal.nibio.go.jp/e_bko.html">GM1 gangliosidosis model mice (β-galactosidase knockout mouse, BKO)</a></h1>
 Resource ID: nbio016
 Remark: Acid β-galactosidase knockout mice.
 Phenotype: GM1 gangliosidosis (Lysosomal disease)
 Genetic status: knockout
 Animal: mouse
 Scientific Name: Mus musclus
</div>
<div id="footer">
 National Institute of Biomedical Innovation (NIBIO)
</div>
  • With microdata:
<div itemscope itemtype="http://schema.org/BiologicalDatabaseEntry">
 <div id="header">
  <span itemprop="isEntryOf" itemscope itemtype="http://schema.org/BiologicalDatabase"><a itemprop="url" href="http://animal.nibio.go.jp/"><span itemprop="name">JCRB Laboratory Animal Resource Bank</span></a></span>
 </div>
 <div id="topicPath">
  <span itemprop="breadcrumb"><a href="category/mouse">mouse</a> > <a href="category/lysosomaldisease">Lysosomal disease</a> > <a href="category/gm1gangliosidosis">GM1 gangliosidosis</a> > <a>BKO</a></span>
 </div>
 <div id="main">
  <h1><a itemprop="url" href="http://animal.nibio.go.jp/e_bko.html"><span itemprop="name">GM1 gangliosidosis model mice</span> (<span itemprop="alternativeHeadline">β-galactosidase knockout mouse, BKO</span>)</a></h1>
  Resource ID: <span itemprop="entryID">nbio016</span>
  Remark: <span itemprop="description">Acid β-galactosidase knockout mice.</span>
  Phenotype: <span itemprop="keywords">GM1 gangliosidosis</span> (<span itemprop="keywords">Lysosomal disease</span>)
  Genetic status: <span itemprop="keywords">knockout</span>
  Animal: <span itemprop="keywords">mouse</span>
  Scientific Name: <meta itemprop="taxonID" content="10090"><span itemprop="keywords">Mus musclus</span>
 </div>
 <div id="footer">
  <span itemprop="provider" itemscope itemtype="http://schema.org/Organization"><span itemprop="name">National Institute of Biomedical Innovation (NIBIO)</span></span>
 </div>
</div>

Example 4

  • Original HTML:
<a href="http://cellbank.nibio.go.jp/">JCRB Cell Bank</a>
Profile: JCRB Cell Bank is the first cell bank in Japan. We collect a wide variety of human cell cultures, verify their purity and quality by testing for microbial contaminations and cross culture contamination, and provide them to researchers.
Date established: 10/1984
Last modified: 02/28/2011
Operated by: <a href="http://www.nibio.go.jp/">National Institute of Biomedical Innovation (NIBIO)</a>
  • With microdata:
<div itemscope itemtype="http://schema.org/BiologicalDatabase">
 <span itemprop="name"><a itemprop="url" href="http://cellbank.nibio.go.jp/">JCRB Cell Bank</a></span>
 Profile: <span itemprop="description">JCRB Cell Bank is the first cell bank in Japan. We collect a wide variety of human cell cultures, verify their purity and quality by testing for microbial contaminations and cross culture contamination, and provide them to researchers.</span>
 Date established: <meta itemprop="dateCreated" content="1984-10">10/1984
 Last modified: <meta itemprop="dateModified" content="2011-02-28">02/28/2011
 Operated by: <span itemprop="provider" itemscope itemtype="http://schema.org/Organization"><a itemprop="url" href="http://www.nibio.go.jp/"><span itemprop="name">National Institute of Biomedical Innovation (NIBIO)</span></a></span>
</div>

Example 5

  • Original HTML:
<div id="header">
 <a href="http://www.nibio.go.jp/">NIBIO</a> > <a href="http://bioresource.nibio.go.jp/">JCRB</a> > <a>Laboratory Animal Resource Bank</a>
</div>
<div id="main">
 <a href="http://animal.nibio.go.jp/">JCRB Laboratory Animal Resource Bank</a> at <a href="http://www.nibio.go.jp/">National Institute of Biomedical Innovation (NIBIO)</a>
 Profile: We are collecting and preserving useful mouse models of human diseases and distributing them as high quality resources to biomedical research community. We also provide mouse embryo/sperm cryopreservation and recovery services.
</div>
<div id="footer">
 Date of Establishment: 11/2006
 Last Update: 02/28/2012
</div>
  • With microdata:
<div itemscope itemtype="http://schema.org/BiologicalDatabase">
 <div id="header">
  <span itemprop="breadcrumb"><a href="http://www.nibio.go.jp/"><span itemprop="keywords">NIBIO</span></a> > <a href="http://bioresource.nibio.go.jp/"><span itemprop="keywords">JCRB</span></a> > <a>Laboratory Animal Resource Bank</a></span>
 </div>
 <div id="main">
  <span itemprop="name"><a itemprop="url" href="http://animal.nibio.go.jp/">JCRB Laboratory Animal Resource Bank</a></span> at <span itemprop="provider" itemscope itemtype="http://schema.org/Organization"><a itemprop="url" href="http://www.nibio.go.jp/"><span itemprop="name">National Institute of Biomedical Innovation (NIBIO)</span></a></span>
  Profile: <span itemprop="description">We are collecting and preserving useful mouse models of human diseases and distributing them as high quality resources to biomedical research community. We also provide mouse embryo/sperm cryopreservation and recovery services.</span>
 </div>
 <div id="footer">
  Date of Establishment: <meta itemprop="dateCreated" content="2006-11">11/2006
  Last Update: <meta itemprop="dateModified" content="2012-02-28">02/28/2012
 </div>
</div>

Example 6

  • Original HTML:
<div lang="ja">
 <h1><a href="http://cellbank.nibio.go.jp/celldata/jcrb0225.htm">JCRB0225 [COLO320 DM]</a></h1>
 説明: 二重微小染色体を伴うヒト大腸由来腺がん細胞株。
 受入日: 08/27/1987
 更新日: 04/25/2003
 生物種: Homo sapiens
 <a href="http://cellbank.nibio.go.jp/">JCRB細胞バンク</a>
 <a href="http://www.nibio.go.jp/">医薬基盤研究所</a>
</div>
  • With microdata:
<div lang="ja" itemscope itemtype="http://schema.org/BiologicalDatabaseEntry">
 <h1><a itemprop="url" href="http://cellbank.nibio.go.jp/celldata/jcrb0225.htm"><span itemprop="entryID">JCRB0225</span> [<span itemprop="name">COLO320 DM</span>]</a></h1>
 説明: <span itemprop="description"><span itemprop="keywords">二重微小染色体</span>を伴う<span itemprop="keywords">ヒト</span><span itemprop="keywords">大腸</span>由来<span itemprop="keywords">腺がん</span>細胞株。</span>
 受入日: <meta itemprop="dateCreated" content="1987-08-27">08/27/1987
 更新日: <meta itemprop="dateModified" content="2003-04-25">04/25/2003
 生物種: <meta itemprop="taxonID" content="9606">Homo sapiens
 <span itemprop="isEntryOf" itemscope itemtype="http://schema.org/BiologicalDatabase"><a itemprop="url" href="http://cellbank.nibio.go.jp/"><span itemprop="name">JCRB細胞バンク</span></a></span>
 <span itemprop="provider" itemscope itemtype="http://schema.org/Organization"><a itemprop="url" href="http://www.nibio.go.jp/"><span itemprop="name">医薬基盤研究所</span></a></span>
</div>

Tools and References



Sagace schema version 0.1