Services

The development and maintenance of the following services is funded through the transPLANT project:

Wheat3BMine, a data warehouse dedicated to wheat chromosome 3B, available at: http://urgi.versailles.inra.fr/Wheat3BMine

Resource type: 

This system makes it possible to load and edit graphs, which may represent biological pathways or functional hierarchies.

Resource type: 

We have integrated sequence associated features on the genomes of four species: rice, maize, soybean, and brassica. Features include: genes, transposons and restriction sites, clone information (BACs), genetic markers and maps.

Resource type: 

S-MART manages your RNA-Seq and ChIP-Seq data. It also produces many different plots to visualize your data.

Resource type: 

The REPET package (Flutre et al, 2011) integrates bioinformatics programs in order to tackle biological issues at the genomic scale.

Resource type: 

Brief description: protein repeat database.

Resource type: 

PRI-CAT (Muino et al 2011; http://www.ncbi.nlm.nih.gov/pubmed/21609962 ) is a user-friendly web-tool for the analysis of plant ChIP-seq experiements.

Resource type: 

The Metabolome Tomato Database (MoTo DB, Moco et al 2006 http://www.ncbi.nlm.nih.gov/pubmed/16896233) is a metabolite database dedicated to LC-MS based metabolomics of tomato (Solanum lycopersicum).

Resource type: 

MIPS maintains and frequently updates a registry of important sequence-based resources for species of agricultural and economic importance as well as model systems.

Resource type: 

For retrieving plant genome data (such as annotation, raw sequence data, etc) mostly implemented as BioMoby services.

Resource type: 

CrowsNest is a tool to interactively visualize and investigate syntenic relationships between (monocot) genomes at macro and micro levels.

Resource type: 

MIPS PlantsDB is a database framework for integrative and comparative plant genome research and provides data and information resources for individual plant species (including Medicago, Arabidopsis, Brachypodium, Sorghum, maize, rice, barley and wheat).

Resource type: 

MetaCrop is a database that summarizes diverse information about metabolic pathways in crop plants and allows automatic export of information for the creation of detailed metabolic models.

Resource type: 

The MAPHiTS pipeline allows the detection of single nucleotide polymorphisms (SNPs) and small insertion/deletions (indels) by comparing high-throughput Illumina short-reads (GAIIx or HighSeq) with a reference sequence from the same or a different species.

Resource type: 

LAILAPS is information retrieval system for all kinds of biological and life science databases. It is used to search and extract relevant content from dozend of databases. The entries are ranked for their relevance in consideration of the users individual preferences.

Resource type: 

This BLAST-service offer accessing to the Hordeum vulgare physical map and genomic sequence data that where released in The international Barley Sequencing Consortium.

Resource type: 

Resource type: 

GWAPP is a GWAS web application that enables reseachers working with Arabidopsis thaliana to do Genome Wide Association Mapping (GWAS) on their own phenotypes in real time.

Resource type: 

GWA-Portal is a web-application that allows researchers working with Arabidopsis thaliana to upload phenotypes, do Genome Wide Association Mapping (GWAS) on different genotype datasets, run meta-analysis of pleiotropy and share the results with other users or the public.

Resource type: 

GrapeMine, a data warehouse dedicated to grape genome, available at: http://urgi.versailles.inra.fr/GrapeMine

Resource type: 

GnpIS is a powerful multispecies centralized database information system dedicated to plant, trees and their bioagressors (fungi). It is composed of a set of relational databases, each optimized according to one data domain and connected together to be search as a whole or by theme.

Resource type: 

GBIS/I allows to retrieve information from the german ex situ collection. With a total inventory of about 150,000 accessions from over 3.200 plant species and 776 genera, the IPK-Genebank holds one of the most comprehensive collections worldwide.

Resource type: 

General introduction, images on the outside view of plants, bulbs and cloves, bulb structure, field cultivation, inflorescence and bulbils and other pictures, passport and characterization data, genotope classification, and image sequences on the ontogenesis of selected types of 124 garlic access

Resource type: 

Passport data, based on the FAO/IPGRI EURISCO-Descriptors list, document about 5000 accessions. Several species (41), originating from almost 57 countries, are represented by advanced and primitive cultivars, breeding material, landraces, weedy and wild material.

Resource type: 

The EBDB contains about 156,000 records, among them 1126 accessions of the International Barley Core Collection (BCC).

Resource type: 

The Ensembl Genomes project produces genome browsers for important species from across the taxonomic range, using the Ensembl software system. Five sites are now available: Ensembl Bacteria, Ensembl Fungi, Ensembl Metazoa, Ensembl Plants, and Ensembl Protists.

Resource type: 

The Crop EST Database (CR-EST) is a public available online resource providing access to sequence, classification, clustering, and annotation data of crop EST projects at the IPK.

Resource type: 

Brief description: BMRF (Bayesian Markov Random Fields for protein function prediction; Kourmpetis et al 2011, http://www.ncbi.nlm.nih.gov/pubmed/21098674) is a method for protein function prediction that integrates information from seque

Resource type: