Datasets

SSBD: Meta-information of quantitative data and microscopy images

Meta-information of quantitative data and datasets of microscopy images provided from SSBD database

Dataset specifications

Tags
Cell Organism Other biomolecule Image/Movie Gene expression Others
Provenance Original
Registration Submitted
Data provider
Creator
  • Yukako TohsatoOsaka Electro-Communication University, Department of Engineering Informatics
  • Koji KyodaRIKEN Quantitative Biology Center, Laboratory for Developmental Dynamics
  • Kenneth H. L. HoRIKEN Quantitative Biology Center, Laboratory for Developmental Dynamics
  • Shuichi OnamiRIKEN Quantitative Biology Center, Laboratory for Developmental Dynamics
Issued 2018-03-24
Licenses
  • Creative Commons Attribution-ShareAlike 2.1 Japan (CC BY-SA 2.1 JP)
Version SSBD31_20171218 release 20180324
Download https://rdfportal.org/download/ssbd
SPARQL Endpoint https://rdfportal.org/primary/sparql

Dataset statistics

Triples
40300
Subjects
6644
Properties
33
Objects
9329
Classes
15

SPARQL example queries

Example 1

Run on Endpoint
PREFIX ssbd: <http://metadb.riken.jp/db/SSBD/>
PREFIX obo:  <http://purl.obolibrary.org/obo/>
PREFIX dcterms: <http://purl.org/dc/terms/>
SELECT ?s ?desc
FROM <http://metadb.riken.jp/db/SSBD>
WHERE
{
  ?s obo:RO_0002162 obo:NCBITaxon_10090 . # mouse
  ?s dcterms:description ?desc .
}

Example 2

Run on Endpoint
PREFIX ssbd: <http://metadb.riken.jp/db/SSBD/>
PREFIX obo:  <http://purl.obolibrary.org/obo/>
PREFIX dcterms: <http://purl.org/dc/terms/>
PREFIX ssbdo: <http://metadb.riken.jp/ontology/SSBD/>
SELECT ?s ?desc
FROM <http://metadb.riken.jp/db/SSBD>
WHERE
{
  ?s obo:RO_0002162 obo:NCBITaxon_6239 . # C. elegans
  ?s ssbdo:inBiologicalProcess obo:GO_0035046 . # pronuclear migration
  ?s ssbdo:basedOn ?text FILTER regex(?text, "simulation", "i") .
  ?s dcterms:description ?desc .
}

Example 3

Run on Endpoint
PREFIX ssbd: <http://metadb.riken.jp/db/SSBD/>
PREFIX dcterms: <http://purl.org/dc/terms/>
SELECT ?s ?desc
FROM <http://metadb.riken.jp/db/SSBD>
WHERE
{
  ?s dcterms:references ?text FILTER regex(?text, "23172286", "i") .
  ?s dcterms:description ?desc .
}

Schema diagram

Schema diagram for ssbd
Schema diagram for ssbd