marcela.karey's blog

The Gramene Team is pleased to announce its release #49. In collaboration with Ensembl Plants we are providing in this release:

• New EMS-derived mutation data for Sorghum bicolor (see example)

• New variation data for Oryza glumaepatula

Data Mining with Gramene!

The Gramene database (http://www.gramene.org) invites you to a FREE 30-min webinar on How to Extract Plant Genomic Data Using BioMart.

The webinar will demonstrate how to explore data for 39 plant reference genomes in the Gramene and Ensembl Plants databases, including sequence, gene structure and annotations such as protein domains and ontology associations, homologs, genetic and structural variations.

Click on the link below to view the full schedule for the GARNet/Egenis workshop on 'Integrating Large Data into Plant Science: From Big Data to Discovery'.

Detailed schedule as PDF

This will take place in Dartington Hall, Totnes, Devon UK. There are a limited number of places available for delegates so anyone interested in attending should contact geraint@garnetcommunity.org.uk with details as to why this meeting would be beneficial for your research.

The Gramene Team is pleased to announce its release #48. In collaboration with Ensembl Plants we are providing in this release:

• New ATLAS gene expression annotations

• New pairwise alignment between Solanum tuberosum and S. lycopersicum (build 2.50)

• New pairwise alignments between Theobroma cacao and: 1) Arabidopsis thaliana, 2) Oryza sativa, and 3) Vitis vinifera

Have a BLAST with Gramene!

The Gramene database invites you to a FREE 30-min webinar on Gramene BLAST.

This webinar will highlight important features of the sequence BLAST tool and demonstrate how to maximize your chances of getting the best BLAST hits. The tool allows aligning query sequences against genomic DNA, cDNAs and translated peptides of 39 plant genomes in Gramene.

A new Plant Ontology (PO) data release is available on the PO browser.

See the highlights in the PO's News blog and complete details in PO's release notes.

The Gramene Team is pleased to announce its release #47 featuring the new Plant Reactome, we are providing version 3 of the Reactome software platform. Notable new features include:

• Data analysis tools

  • Diagram overlay visualization of gene lists, Uniprot IDs, compound identifiers, and/or -omics expression data

  • Inter-species pathway comparison

• Advanced search features built on the Apache Solr platform

CSHL Information Technology will be performing some network maintenance on the early morning of Friday, August 7th. The maintenance will interrupt network access to Gramene's servers, affecting local and Internet access to the machines.

UPDATE: The work will be performed between 12:00 - 12:30 AM EDT.

Please plan accordingly. We apologize for the inconvenience.

The Gramene Team

Are you ready for this year's Plant Biology Conference?

Gramene will be participating at ASPB's most anticipated annual meeting with the following events:

Gramene Webinar on Arabidopsis Data & Resources in the Gramene Database

Tuesday, July 14, 2015 @ 2:00 PM EDT