News archive | |
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Sugar beet GSS sequences from GABI BeetSeq publicly available (29/08/08):
• These 2.815 GSS (fosmid ends) from the sugar beet DH line KWS2320 were generated in the GABI BeetSeq project. The data have recently been published in Genome
(C. Lange et al. 2008).
• Please find the data via GreenCards searching for "IGS-SCF*".
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SATlotyper - a new software tool - available for download (07/08/08):
• SATlotyper is designed for inferring haplotypes and phased genotypes from unphased SNP data for polyploid and polyallelic heterozygous populations.
• This tool developed by the GabiPD team has recently been published in BMC Genomics.
(J. Neigenfind et al. 2008).
Download and more information
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New Gene GreenCard with NCBI UniGene information for all GabiPD sequences (07/08/08):
• Based on the best BLAST hit against Uniprot all GabiPD sequences are linked to the new Gene GreenCard with NCBI UniGene information and vice versa.
View an example
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Conserved protein domains displayed on barley ESTs (25/07/08):
• Conserved protein domains are displayed on the barley EST sequences in GabiPD.
View an example
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All potato maps updated (25/07/08):
• Potato genetic and physical maps as well as Solanaceae Functional Maps were updated.
View and download mapping data.
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Arabidopsis Gene GreenCards upgraded (12/06/08):
• The cDNA display in the Gene GreenCard is extended by new graphical features:
• Conserved protein domains are displayed on the sequence and corresponding ESTs are similarity-based mapped. Exon-exon borders are visualised.
View an example
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The new Gene GreenCard in GabiPD offers comprehensive gene-specific information for Arabidopsis (02/06/08):
• All Arabidopsis data types are pointing now to the central Gene GreenCard.
• With the Gene GreenCard links to genome annotation databases as well as other GABI and external resources are provided: e.g., ARAMEMNON, PhosPhAt and PlnTFDB.
Search for your AGI code of interest
View an example
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About 2.800 new Sugar beet EST sequences exclusively available for WPG participants (02/06/08):
• Most of the sequences were generated within the GABI-Genoplante joint project Sugar Beet Seed.
• Please find the data via
GreenCards searching for "FG3*".
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Sugar beet GSS sequences from GABI BeetSeq available (22/05/08):
• 2.815 GSS (fosmid ends) from the sugar beet DH line KWS2320 generated in the GABI BeetSeq project were cleaned and submitted to the GenBank by the GabiPD team. Sequences in GabiPD are exclusively available for all WPG-participants.
• Please find the data via
GreenCards searching for "IGS-SCF*". |
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New GabiPD web address (22/04/08):
• The GabiPD webpage is accessible via a new URL: www.gabipd.org. Nevertheless it is still possible to use the old web address.
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Potato SNP data is now available (22/04/08):
• Potato SNP data from 24 different loci generated in the GABI-CONQUEST 2 project are exclusively available for all WPG-participants.
An example
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Barley clone list representing a new 27K UniGene set is now available (07/02/08):
• 459.231 ESTs (from the IPK and public resources) were clustered by the GabiPD team in cooperation with the IPK Gatersleben.
• Based on this assembly a list of IPK cDNA clones enriched for full-length clones was created.
Clone list
More information
Example contig
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Barley EST sequences from the IPK Gatersleben public (07/02/08):
• Over 10.000 RUS-sequences from different cDNA libraries were generated within GABI-SEED.
Please find the data via GreenCards searching for "RUS*".
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Over 29.000 new barley EST sequences from the IPK Gatersleben public (18/12/07):
• These sequences from the HDP library were generated within GABI-PLANT.
Please find the data via
GreenCards searching for "HDP*".
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All GabiPD sequences blasted against Uniprot_Swissprot (22/11/07):
• Please find the Blasthits with the sequences
An example
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New MapMan version available for download (22/10/07):
• Version 2.1.1 from 12.09.2007 includes clustering visualization, many usability enhancements and bug fixes
Download
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Metabolite data are displayed now via MapManWeb (21/09/07):
• Please find sets of metabolite profiling data in combination with gene expression data from Arabidopsis diurnal cycle provided by ARABIDOPSIS-Verbund III.
View metabolite data (Diurnal Cycle)
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The GabiPD team has moved to the Max Planck Institute for Molecular Plant Physiology Potsdam-Golm (31/07/07):
• We will continue the GABI Primary Database Service during GABI-Future based on further funding by the BMBF.
Contact us.
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About 29.400 new barley EST sequences from GABI-PLANT (31/07/07):
• Data are exclusively accessible for all WPG participants. Find these data via
GreenCards searching for "HDP*".
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Sugar beet genomic RFLP sequences from GABI-BEET are now available (31/07/07):
• These data have been published in Theoretical and Applied Genetics.
(Schneider K. et al. 2007). Search for these data via GreenCards, combining "Beta vulgaris" with the submitter names "Schneider"or "Jung".
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Medicago truncatula gene expression data are now available via MapManWeb in GabiPD (31/05/07):
• Defense-associated gene expression in Medicago is suppressed by LPS of the microsymbiont Sinorhizobium meliloti
(Tellström, Usadel et al. 2007).
View gene expression data More MapMan information |
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Barley cDNA clones
in E. coli expression vector are exclusively available at RZPD (14/02/07):
• About 3,900 Barley cDNA clones in the E. coli expression vector pQE30NST from GABI-SEED and GABI-LAPP are now available (Kramer et al. 2004).
Detailed clone information Visit GabiPD's BioMaterials
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Barley mapping data (14/12/06):
• Barley mapping data from the GABI-Map project are now public available. Go to Maps to view mapping data of the seven barley chromosomes or to GreenCards to search for elements mapped on barley chromosomes by keyword. Related EST sequence information is provided with the marker descriptions.
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Sugar beet genomic RFLP sequences from GABI-BEET available (14/12/06):
• These data are exclusively accessible for all WPG participants. Search for these data via GreenCards, combining "Beta vulgaris" with the submitter names "Schneider"or "Jung".
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Proteomic data from Brassica napus accessible (09/11/06):
• Go to Proteomics to view interactive 2D gels from Julia Kehr's group (Max Planck Institute for Molecular Plant Physiology) |
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Potato EST sequences (24/10/06):
• More than 6.800 new potato EST sequences from GABI-Genosome are now public available (libraries SSBN, SSBT, STDB, SDBT, SDBN). Search for these data via GreenCards |
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New MapMan version available for download (23/09/06):
• MapMan 2.0.0 With filtering support for derived values (p-values..) .
Download |
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Trace files visualisable through web
(08/08/06):
• About 20.000 trace files are now integrated into GabiPD and
can be viewed as image and explored via JavaApplet.
Screeshots of traces containing SNPs stored in GabiPD: trace1 , trace2
Full
EST example |
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Access GabiPD via BioMoby (08/08/06):
• Parts of the GabiPD are now available through the BioMoby
WebService.
More information
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| New Project BreedCAM (08/08/06):
• BreedCAM (Breeding Cultivation and Measurement) provides
access to LfL results of cultivation for different Barley
varieties.
More information
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Arabidopsis expression clones
exclusively available from the RZPD (01/06/06):
• About 4,500 cDNA clones for expression of His-tagged
proteins are now available from the RZPD (Feilner et al. 2005). These clones are compatible with Gateway recombinational cloning by attB-sites.
More information UNIgene clone set |
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Frame prediction provided for Arabidopsis expression clones (01/06/06):
• For about 4,400 of the expression clones, frame prediction is provided within the clone description.
For example |
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More than 18,000 Arabidopsis cDNA / full ORF clones available from the RZPD (01/06/06):
• Sequence information, ORF prediction, and Blast results provided for all of these clones. Search for your clone of interest using AGI code, Genebank accession, clone ID, or sequence name in GreenCards.
Search for all clones More information |
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New MapMan version available for download (30/01/06):
• MapMan 1.8.0 with new graphical symbol visualization to explicitly differentiate between different data types available for download.
Download |
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Bioinformatic Tools for sequence analysis:
• Some bioinformatic tools for sequence analysis are accessible via GabiPD. The tools are from the EMBOSS package. To use this tools, go to GabiPD Biotools |
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Barley EST sequences (13/12/05):
• More than 10.000 new barley EST sequences available. These data are exclusively accessible for all WPG and GABI participants. Search for these data via GreenCards |
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Potato EST sequences (13/12/05):
• More than 6.000 new potato EST sequences from GABI-Genosome available. These data are exclusively accessible for all WPG and GABI participants. Search for these data via GreenCards |
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Potato mapping data available for download (04/11/05):
• Download of genetic maps of potato chromosomes I to XII.
Download |
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New MapMan version available for download (21/09/05):
• MapMan version 1.6.3 available for download. News: statistics, advanced data loading, legend and linkout.
Download |
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Solanaceae function maps for pathogen resistance (21/09/05):
• The 'SOLanaceae Function Map for Pathogen Resistance' has been compiled by Christiane Gebhardt (MPI for Plant Breeding Research, K???ln, Germany, gebhardt@mpiz-koeln.mpg.de).
View maps |
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Full ORF Arabidopsis clones available (30/08/05):
• About 1000 Arabidopsis full ORF clones available from RZPD.
More information |
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Arabidopsis expression clones (15/08/05):
• Sequence information on about 4,600 Arabidopsis cDNA expression clones are accessible. All clones will be available from RZPD shortly.
More information |
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Arabidopsis T-DNA lines (18/04/05):
• Version 17 of GABI-KATs Arabidopsis T-DNA lines available. Search for this data via GreenCards |
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Arabidopsis gene expression data (04/01/05):
• View Arabidopsis gene expression from AtGenExpress via MapManWeb. View data |
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Brassica napus EST sequences (14/12/04):
• More than 8.500 EST sequences from Brassica napus accessible. Search for this data via GreenCards |
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More than 19.000 new EST sequences from barley (06/10/04):
• These GABI-AGROTEC data are exclusively accessible for all WPG and GABI participants. Search for these data via GreenCards. |
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Barley mapping data (16/07/04):
• Barley mapping data from the GABI-Map project are exclusively accessible for all WPG partners. Go to Maps to view mapping data of the seven barley chromosomes or to GreenCards to search for elements mapped on barley chromosomes by keyword. |
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Barley BAC sequence (07/07/04):
• BAC contig_rym4: 439 kb of barley chromosome 3HL, region around rym4 gene exclusively accessible for WPG partners.
Login and view BAC-sequence via GreenCards |
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Download Arabidopsis 2D-gel images and data:
• Overview and download of 2D-gels of different tissues (inflorescence, stem, primary leaf, leaf, seed, seedling, silique, root) |
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Download MapMan:
• MapMan is a user-driven tool that displays large datasets (e.g. gene expression data from Arabidopsis Affymetrix arrays) onto diagrams of metabolic pathways or other processes. |
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More than 7.000 new EST sequences from barley (01/27/04):
• These GABI-AGROTEC data are exclusively accessible for all WPG and GABI participants. Search for these data via GreenCards. |
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Barley cDNA clones (11/28/03):
• Sequence information on more than 3900 Barley cDNA clones (cloned in expression vector) are exclusively accessible for all WPG participants. Login and go to GreenCards to get access to these data. |
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Arabidopsis Proteomics data accessible (11/13/03):
• Proteomics data from the GABI-LAPP project are accessible. Go to Proteomics to view interactive 2D gels. |
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Arabidopsis cDNA clones (11/13/03):
• Sequence information on more than 4500 Arabidopsis cDNA clones (cloned in expression vector) are exclusively accessible for all WPG participants. Login and go to GreenCards to get access to these data. |
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Maps of all twelve potato chromosomes (09/30/03):
• Data are exclusively accessible for all GABI and WPG participants. Go to Maps to view mapping data. |
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16.000 new EST sequences from barley (09/18/03):
• Data are exclusively accessible for all WPG participants. Search for these data via GreenCards. |
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Potato SNPs and InDels:
• SNP and InDel data from diverse di- and tetraploid potato strains are accessible via GabiPD. Data are from the GABI-CONQUEST project. Search for these data via GreenCards. |
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Download:
• Arabidopsis genes (annotated by AGI or CATMA) represented on Affymetrix chip |
