Referenced Genomic Resources

LAILAPS support the integrative search over distributed data resources. Rather than integrate them tightly, we assume that genomics resources build a network. This motivates the idea of Integration by Reverse Mapping. The resources of those mappings are sequence annotations. At the moment, LAILAPS comprise 11 mappings from indexed genome annotation hubs to genomics resources. Or learn how to contribute own mappings.

Genomes

  • EnsemblPlants
    The EnsemblPlants project produces genome databases for plant species, and makes this information freely available online.
  • GnpIS
    A genomic and genetic information system for plants of agronomical interest and their bioagressors. The GnpIS portal project (Genetic and Genomic Information System) is a tool aiming to provide simple and fast access to the data located in all URGI databases: GnpArray, GnpGenome, GnpMap, GnpSeq, GnpSNP and Siregal.
  • PlantsDB
    PlantsDB aims to provide a data and information resource for individual plant species. In addition PlantsDB provides a platform for integrative and comparative plant genome research.
  • CR-EST
    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-Gatersleben.
  • BARLEX/Barley/IPK
    The BARLEX - the barley genome explorer - allows a visual inspection of barley BAC overlaps. In addition to a graph view the user can access dotplots and fingerprints to compare two individual BACs with each other.
  • KEGG
    KEGG is a database resource for understanding high-level functions and utilities of the biological system, such as the cell, the organism and the ecosystem, from molecular-level information, especially large-scale molecular datasets generated by genome sequencing and other high-throughput experimental technologies.

Observations of Phenotypic Traits

  • POLAPGEN DB
    Contains observations of phenotypic traits and DNA markers obtained in the project "Biotechnological tools for breeding cereals with increased resistance to drought".

Protein Function Prediction

  • BMRF
    Bayesian Markov Random Field (BMRF) is an algorithm for protein function prediction. Function predictions are available for:
    • Arabidopsis thaliana
    • Glycine max
    • Medicago truncatula
    • Oryza sativa

Systems Biology

  • MetaCrop
    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.
  • OPTIMAS-DW/Maize/IPK
    A comprehensive transcriptomics, metabolomics, ionomics, proteomics and phenomics data resource for maize.

Biomedical Literature Databases

  • PubMed
    PubMed comprises more than 24 million citations for biomedical literature from MEDLINE, life science journals, and online books. Citations may include links to full-text content from PubMed Central and publisher web sites.

Submit Further Resources

Install new idmapping as archive. An archive comprise 2 files: 1. mapping.properties 2. mapping.csv The fields in mapping.properties are: 1. resource_name: "The label for the linked data resource" 2. description: "Up to 500 character abstract of the linked data resource" 3. overview_url: "URL to the home page of the linked data resource" 4. mapping_url: "URL pattern to resolve a linked database record: http://pgrc.ipk-gatersleben.de/cr-est/external.php?est=#IDENTIFIER#"