Misaweb can be accessed under the website provides tutorials, usage note as well as download links to the source code. Marius felder2, andreas graner1, uwe scholz1, klaus fx mayer3, matthias platzer 2 and nils stein 1 address. Oct, 2011 garlic and shallot are important vegetable and spice plants, garlic is also a medicinal crop widely used throughout the world. Genebank genomics bridges the gap between the conservation of crop diversity and plant breeding. Bioinformatics and information technology ipk gatersleben. Since 1 september 2010, it is part of the town seeland. Leibniz institute of plant genetics and crop plant research ipk gatersleben, stadt seeland, corrensstra. Uwe scholz 28 researchgroupsin total at ipk as of october, 2017 prof. Bioinformatician, ipk gatersleben, stadt seeland, germany. Leibniz institute of plant genetics and crop plant research ipk gatersleben, 06466 seeland, germany.
Therefore, the ipks living collection of allium is one of the worlds largest special collections of this genus with garlic and shallot being. Maximum number of files 20 maximum size per file 1 gb. Martin mascher, mona schreiber, uwe scholz, andreas graner. Bmc bioinformatics biomed central connecting repositories. Specieswide genome sequence and nucleotide polymorphisms. He is known for his work on le sacre du printemps 2008 and soulscapes. To lay the foundation for hierarchical mapbased sequencing, a genomewide physical map of its large and complex 5. Physical maps for 6as and 6al have been assembled using ltc from whole genome profile wgp sequence tags of 18,820 6as and 17,309 6al bacs from chromosome arm libraries developed in the lab of j. Uwe scholz created more than 100 choreographic works for major companies and venues. Both belong to the genus allium, which has been a main target of the taxonomical research at the ipk for many years. Biodiverstity informatics 30 research groups in total at ipk coordination.
Mayer acknowledges support from bmbf for grant 0314000 barlex, 0315954 tritex and the european commission 7th framework infrastructure programme 283496. The website provides tutorials, usage note as well as download links to the source code. Dal data publication and sharing infrastructure, the pgp was established in january 2015 at the ipk gatersleben to share research data derived from studies of plant genomics and phenomics with particular emphasis on the support of association studies integrating genomic. Uwe scholz, viktor korzun, eva bauer show full information. Wholegenome shotgun of hexaploid wheat synthetic w7984. If you have not yet created a user account, please do so now. Scholz was born in jugenheim now seeheimjugenheim in hesse, germany on 31 december 1958, and studied music at the landestheater darmstadt conservatory. Program grc2019 on applied bioinformatics in crops. Andrea brautigam biodiverstity informatics coordination. Gbisi allows to retrieve information from the federal ex situ collection by using various approaches scientific oriented to perform queries.
Barley hordeum vulgare is an important cereal crop and a model species for triticeae genomics. Genomicsbased highresolution mapping of the bammvbaymv. Growth screening that has been frequently downloaded 7. Jun 28, 2019 genebank genomics bridges the gap between the conservation of crop diversity and plant breeding. Uwe scholz was born in jugenheim germany on december 31, 1958. Dal features range from browsing and downloading published data. Uwe scholz1, falk schreiber1 and bjorn h junker1,2 address. Uwe scholz 31 december 1958 21 november 2004 was a german ballet dancer, director, and choreographer life. Forschungsbericht forschungsbericht 2016 ipk gatersleben. Based on the universal electronic data archive library e. Garlic and shallot are important vegetable and spice plants, garlic is also a medicinal crop widely used throughout the world. Apr 16, 2016 the ipk plant genomics and phenomics research data repository. Nbi user training plant 2030 summer school basis bioinformatics training for biologists 1 directories 0 files. Pdf use of high throughput techniques and the reference.
In modern life science research it is very important to have an efficient management of high throughput primary lab data. Dal data publication and sharing infrastructure, the pgp was established in january 2015 at the ipk gatersleben to share research data derived from studies of plant genomics and phenomics with particular emphasis on the support of association studies integrating. Bioinformatics at the ipk ipk startseite ipk gatersleben. This was followed shortly with the genomes of the first crop plants, rice and poplar and since then both crop and noncrop plants from diverse clades have been sequenced and assembled. Login to view email address ipk gatersleben, germany. To realise such an efficient management, four main aspects have to be handled. The garlic and shallot core collection image database of ipk presenting two vegetatively maintained crops in the federal ex situ genebank for agricultural and horticultural crops at gatersleben. The last decade has seen tremendous progress in the field of plant genomes which began with the model plant, arabidopsis thaliana, whose genome was published in 2000 arabidopsis genome, 2000. A case study for efficient management of high throughput primary lab data christian colmsee, 1 steffen flemming, 1 matthias klapperstuck, 1 matthias lange, 1 and uwe scholz 1 1 leibniz institute of plant genetics and crop plant research ipk, corrensstr. By opening a user account you will be able to order samples and to create and save your wish list, which will be available again at the next login. The garlic and shallot core collection image database of ipk. Ipk bioinformatics 2016 ipk startseite ipk gatersleben.
Pdf the garlic and shallot core collection image database. Frontiers people highlights some of the most notable researchers worldwide, widely recognized for their outstanding contributions in their different areas of expertise. Bioinformatics at the ipk encompasses both computational biology and collaboration with. Leibniz institute of plant genetics and crop plant research ipk, corrensstr.
Oct 17, 2011 in modern life science research it is very important to have an efficient management of high throughput primary lab data. Martin mascher, uwe scholz and nils stein from ipk, together with their colleagues at the joint genome institute, california, usa, university of minnesota st. We have developed tritex, an opensource computational workflow that combines pairedend, matepair, 10x genomics linkedread with. The cumulative size of all scaffolds is 9,4,017,866 base pairs. Genebank genomics bridges the gap between the conservation of. Groups with bioinformatics focus are distributed in the different departments to facilitate direct interaction with experimental lab biology. As an international leading center of crop research, the ipk gatersleben feels obligated to this challenge. Andres gordillo, peer wilde, malte schmidt, viktor korzun, klaus fx mayer, karl schmid, chriscarolin schon and uwe scholz. Uwe scholz was born on december 31, 1958 in seeheimjugenheim, hesse, germany. Dala framework to store, share and publish research data. Junker and uwe scholz and stephan weise, title metacrop 2. Misaweb was updated and set up as a webapplication on the ipk server. Leibniz institute of plant genetics and crop plant research at gatersleben ipk, bit, uwe scholz, helmholtz center munich.
The ipk plant genomics and phenomics research data repository. Uwe scholz in memory of the german ballet choreographer. Bioinformatics at the ipk encompasses both computational biology and collaboration with experimental lab biology. The delivery of plant genetic resources is done with fees. Uwe heinrich, leibniz centre for agricultural landscape research zalf. Users may either paste their nucleotide sequence of interest in the input fields of misaweb or supply accession numbers to have the corresponding sequences fetched from ncbi 1. Scholz u, 00000001613518, leibniz institute of plant genetics and crop plant research ipk bmc research notes, 17 oct 2011, 4. Matthias lange, ipk gatersleben, germany mining integrated data sources using lailaps october 14, 2014 transplant training workshop. Bioinformatics in the plant genomic and phenomic domain. Oct 17, 2011 scholz u, 00000001613518, leibniz institute of plant genetics and crop plant research ipk bmc research notes, 17 oct 2011, 4. I long term storage, ii security, iii upload and iv retrieval. The assembly was done with meraculous chapman et al.
This data resource contains the fasta sequences of scaffolds constructed for the rye reference inbred line lo7. Research profile for uwe scholz ipk gatersleben, provided by rxivist, the site that helps you find the most discussed biology preprints on the internet. It is situated southwest of magdeburg and northwest of halle saale. Ipk, gatersleben, germany, says that these results will. In line with the frontiers vision of spreading research knowledge across the world, the purpose of such a prestigious register is to promote an international forum for collaborations, research networking and peer reference. Chromosomescale genome sequence assemblies underpin pangenomic studies. Specieswide genome sequence and nucleotide polymorphisms from the model allopolyploid plant brassica napus.
Scaffolds v2 were constructed using the wgs assembly of lo7 emblena under the project number prjeb501 with accession numbers fkki00001fkki011581707. Programmatic access to fairified digital plant genetic resources. Growth screening that has been frequently downloaded report 7. Uwe scholz, leibniz institute of plant genetics and crop plant research ipk. Genebank genomics bridges the gap between the conservation. We have developed tritex, an opensource computational workflow that combines pairedend, matepair, 10x genomics linkedread with chromosome conformation capture. Welcome to gbisi by opening a user account you will be able to order samples and to create and save your wish list, which will be available again at the next login. Martin mascher, uwe scholz and nils stein from ipk, together with their colleagues at the joint genome.
Two years later he moved on to the landestheater darmstadt for training. A case study for efficient management of high throughput. The 6a physical mapping effort is a subproject of the broader tritex project that includes barley and is coordinated by nils stein. Here, we established a virtual linear gene order model genome zipper comprising 22,426 or 72% of the detected set of 31,008 rye genes. The ipk is an internationally leading scientific institution in the fields of plant genetics and crop science. Rye secale cereale is closely related to wheat triticum aestivum and barley hordeum vulgare.
In four scientific departments and five independent working groups, the ipk focuses on revealing the underlying principles of evolution, development and adaptation of important crops. As an international leading center of crop research, the ipkgatersleben feels obligated to this challenge. In this paper we define central requirements for a primary lab data management and discuss aspects of best practices to. The garlic and shallot core collection image database of. The research group is engaged in the management of research data, in the implementation of integrated biological link information.
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