SoyMine: Home

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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.

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Welcome to the LIS Soymine!

This mine integrates many types of data for soybean. It is currently under development by LIS/LegFed/NCGR as a demo built from the LIS chado database (genomic data) and the SoyBase database (genetic data). Contact Sam Hokin shokin at ncgr dot org.

Click here to see a GWAS experiment, a new entity added in v0.9!

Latest updates (v0.9, July 2018)

Phyotome gene families have been replaced by the new LIS gene families.
We've added some GWAS-derived QTLs from SoyBase. More to come.
Genes (rather than proteins) are now associated with Gramene Plant Reactome species-specific pathways. Look for the external link to the Gramene page on the Pathway report page.
Some model cleanup to make all the LIS mines use a consistent model.
Soybean self-synteny added.

Genomic queries, leading to genes and other chromosome features. Read more

Query for genomics:

Queries on homology, synteny, etc. Read more

Query for comparison:

Queries on GO terms, etc. Read more

Query for function:

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

Query for expression:

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

Query for genetics:

Queries resulting in publication lists. Read more

Query for publications:

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:

The Legume Information System (LIS) is a research project of the
USDA-ARS:Corn Insects and Crop Genetics Research in Ames, IA.

Mine development is also supported by the Legume Federation,
an NSF project to federate legume resources around the world.

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