Search this mine. Enter names, identifiers or keywords. Examples: Glyma.01G086900, Glyma.01G086900.1, BARCSOYSSR_04_1400, Seed yield 15-5, R-GMA-8879007.1, David Grant.


Enter a list of identifiers.

Welcome to the LIS SoyMine!

This mine integrates many types of data for soybean. It is currently under development by LIS, built from the LIS chado database (genomic data) and the SoyBase database (genetic data) as well as some flat files. Contact Sam Hokin shokin at ncgr dot org.

Latest updates (v0.10, October 2018)

  • We've added the big BARC_1059007 genotyping study, which genotyped all of the GRIN soybean accessions using the SoySNP50K BeadChip.
  • To support the above, we've imported the GRIN soybean lines (as GenotypingLine) along with their Phenotype information.
  • New displayer: a genotyping matrix viewer for the genotyping study
  • New displayer: an allele counter on genetic marker report pages
  • New displayer: a scatterplot of QTL p-values on GWAS experiments (think Manhattan plot)
A note about "Organism"
InterMine associates an "Organism" with a distinct genome. Therefore, you will find many soybean "organisms" in this mine, which represent different varieties. However, some quantities, like genetic markers, are not associated with a specific variety; in that case, they are associated with and placed on the reference Williams82 genome.

Queries on homology, synteny, etc. Read more

Query for comparison:

More queries

Queries on gene expression, resulting in gene lists. Read more

Query for expression:

More queries

Queries on genetic data: QTLs, genetic maps, markers, etc. Read more

Query for genetics:

More queries

Queries resulting in publication lists. Read more

Query for publications:

More queries

Perl, Python, Ruby and Java API

perl java python ruby

Access our SoyMine data via our Application Programming Interface (API) too! We provide client libraries in the following languages: