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News from the transPLANT project and partners. See also the transPLANT newsletter.

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The goals of the workshop are to develop ontology terms and definitions for the Plant Ontology (http://www.plantontology.org/) and the Reference Plant Trait Ontology (under development) and applications that utilize those resources.

The ultimate goal is to establish a semantic framework for meaningful cross-species queries across gene expression and phenotype data sets from plant genomics and genetics experiments.

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A workshop focused on triticeae (wheat and barley mainly) data resources and tools, and include tutorials on data access and use from INRA, EBI-EMBL, IPK and MIPS.

This workshop is targeted at (experimental) biologists, breeders, bio-informaticians and all other data users as no prior (informatics) knowledge or skills are required.

We have added a set of homoeologous SNPs between wheat A, B and D genomes using wheat contigs aligned to Brachypodium distachyon as a reference framework, a structural variation dataset for

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Plants are sessile and therefore exposed to a number of biotic and abiotic stresses. Drought is the major abiotic stress restricting plant growth worldwide.

Recent developments in DNA sequencing have enabled the large and complex genomes of many crop species to be determined for the first time, even those previously intractable due to their polyploid nature.

Recent methodological developments in plant phenotyping, as well as the growing importance of its applications in plant science and breeding, are resulting in a fast accumulation of multidimensional data.

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Get results from ten different plant genomics databases in a single click.
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variation archive

Store, accession and update plant variation data. Now accepting submissions.

Training resources

A collection of training resources from transPLANT related events. Browse the materials.

Search for genomic resources for plant species of agricultural and scientific importance. Try a sample search...

transPLANT

is a European-Union funded e-infrstructure to support computational analysis of genomic data from crop and model plants. The project funds coordination and research activities; and provides free access to tools, training and data standards.

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Training

transPLANT is running a series of training courses across Europe. The next one will be held at EMBL-EBI, Hinton, UK, 1st-3rd July, 2015. When registration is opened, details will be posted here.

  • You can access material from the previous transPLANT training courses here.
  • We are developing a series of videos, guiding users through some of the most interesting and complex data sets available for plants. View the first video, focused on resources for the barley genome, here.

Standards

The development and adoption of data standards is vital to the interoperability of data. transPLANT is currently pursuing the development of standards for plant phenotyping data, in collaboration with other interested groups. Visit our Phenotype standardisation portal to see the latest proposals and get involved.