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About Us
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Contact
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Webmaster
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Dr. Birgit Kersten
Phone: +49-(0)331-567-8750
Fax: +49-(0)331-567-89-8750 |
Axel Nagel
Phone: +49-(0)331-567-8751
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Max-Planck-Institute of Molecular Plant
Physiology
GabiPD Team, Bioinformatics
14424 Potsdam
Germany
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General information about GABI
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GABI, acronym for "Genomanalyse im biologischen System
Pflanze", is the name of a large collaborative network of different
plant genomic research projects. The projects are funded by the
Federal Ministry of Education and Research (BMBF) with the purpose
to support plant genome research in Germany, to yield information
about commercial important plant genomes, and to establish a
scientific network within plant genomic research.
GabiPD (The GABI Primary Database) is part of the large GABI network.
For more information: http://www.gabi.de;
http://www.bmbf.de/pub/gabi.pdf
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Aims of GabiPD (The GABI Primary Database)
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GabiPD collects, integrates and links all relevant primary
information from the GABI projects and makes them accessible via
internet. For data searches interfaces are developed. GreenCards is the main
interface for text based retrieval of sequence, snp, mapping data etc.
Sharing and interchange of data among collaborating research groups,
industry and the patent- and licensy agency are facilitated. Besides
bioinformatics services are offered to the
GABI community.
GabiPD is funded by the Federal Ministry of Education and Research (BMBF).
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Data submission and access to the data
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Registered users can submit data via secure file upload. To
submit data, please go to: Submit data
The owner of the data can define who gets access to the data.
All data which are achieved with materials or services of the GABI
resource centers are subjected to the rules laid out by the BMBF. That
is, the submitted data are only accessible for the owner of the data
and an owner-defined usergroup up to six month. After this time the
patent- and licensing agency (PLA) and the Wirtschaftsverbund
Pflanzengenom (WPG) get the authorization to access your data for
three month prior to publication.
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Team members
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GabiPD Team in the Bioinformatics group at the MPIMP:
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Dr. Birgit Kersten |
Team leader, Biologist |
Email:
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Dr. Diego Riano-Pachon |
Postdoc, Bioinformatician |
Email:
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Axel Nagel |
Computer scientist |
Email:
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Rico Basekow |
Computer scientist |
Email:
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Doreen Pahlke |
Computer scientist |
Email:
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Jost Neigenfind |
PhD student, Bioinformatician |
Email:
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Sabrina Kleessen |
Student worker |
Email:
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Former members:
Oezguer Demir
Dr. Svenja Diehl (Meyer)
Dr. Pawel Durek
Maren Imhoff
Sebastian Koehler
Robert Wagner
Daniel Walaschewski
Elke Weber
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Current projects of the GabiPD Team
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GABI-FUTURE GabiPD:
GABI Primary Database (GabiPD)
(BMBF; single project, 2007-2011; project coordinator: Dr. Birgit
Kersten)
GabiPD home
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GABI-FUTURE MapMen:
A portfolio of user-driven tools to design, handle, visualize and
analyze functional genomics experiments against a background of
existing knowledge: Tuning in Arabidopsis and application to crop
genomics
(BMBF; subproject, 2007-2010; project coordinator: Prof. Mark Stitt,
MPIMP)
MapMan in GabiPD
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GABI-FUTURE Papatomics:
Validation of association between DNA-based markers and quantitative
traits in advanced breeding populations of potato by marker-assisted
selection and "Papatomics" (potato transcriptomics, proteomics,
metabolomics)
(BMBF; subproject, 2008-2010; project coordinator: PD Dr. Christiane
Gebhardt, MPIZ)
PoMaMo in GabiPD
SATlotyper in GabiPD
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GABI-FUTURE GABI-GAIN:
Biometric and bioinformatic tools for genomics-based plant breeding
(BMBF; subproject, 2008-2010; project coordinator: Prof. Dr. Albrecht
Melchinger, Universität Hohenheim)
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Climate 2010:
Climate tolerance of barley – From gene induction to function
(StMELF, Bayerisches Staatsministerium für Ernährung,
Landwirtschaft und Forsten; subcontract, 2009-2011; project
coordination: Dr. Guenther Schweizer, LFL)
Current
presentation
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GABI Plant-KBBE II ExpResBar:
Exploiting genetic variation for resistance to important pathogens in
barley
(BMBF; subproject, 2010-2013; project coordination: Jutta Förster,
Saaten-Union BIOTEC GmbH)
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Arabidopsis WebServices:
Participation in Arabidopsis WebServices http://bioinfo.mpiz-koeln.mpg.de/araws
WebServices in GabiPD
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Publications of the GabiPD Team
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Riaño-Pachón DM, Kleessen S, Neigenfind J,
Durek P, Weber E, Walther D, Selbig J, Engelsberger W, Schulze W and B
Kersten (2010) Proteome-wide survey of phosphorylation patterns
affected by nuclear DNA polymorphisms in Arabidopsis thaliana. BMC
Genomics 11(1):411. PubMed
Durek P, Schmidt R, Heazlewood J, Jones A, MacLean D, Nagel A,
Kersten B and W Schulze (2010) PhosPhAt: The Arabidopsis thaliana
phosphorylation site database. An update. Nucleic Acids Research 38
(Database issue): D828-D834. PubMed
Pérez-Rodriguez P, Riaño-Pachón DM,
Corrêa LGG, Rensing S, Kersten B and B Mueller-Roeber (2010)
PlntTFDB: Updated content and new features in the Plant Transcription
Factor Database. Nucleic Acids Research 38 (Database issue):D822-7. PubMed
Kim JA, Cho K, Singh R, Jung YH, Jeong SH, Kim SH, Lee JE, Cho
YS, Agrawal GK, Rakwal R, Tamogami S, Kersten B, Jeon JS, An G and NS
Jwa (2009) Rice OsACDR1 (Oryza sativa Accelerated Cell Death and
Resistance 1) is a potential positive regulator of disease resistance.
Molecules and Cells 28, 431-439. PubMed
Usadel B, Poree F, Nagel A, Lohse M, Czedik-Eysenberg A and M
Stitt (2009) A guide to using MapMan to visualize and compare Omics
data in plants: a case study in the crop species, Maize. Plant Cell
Environ. 32(9):1211-29. PubMed
Kersten B, Agrawal GK, Durek P, Neigenfind J, Schulze W, Walther
D and R Rakwal (2009) Plant phosphoproteomics: An update. Proteomics
9(4):964-88. PubMed
Pajerowska-Mukhtar K, Stich B, Achenbach U, Ballvora A, Luebeck
J, Strahwald J, Tacke E, Hofferbert H-R, Ilarionova E, Bellin D,
Walkemeier B, Basekow R, Kersten B and C Gebhardt (2009) Single
nucleotide polymorphisms in the allene oxide synthase 2 gene are
associated with field resistance to late blight in populations of
tetraploid potato cultivars. Genetics 181(3):1115-27. PubMed
Riano-Pachon DM, Nagel A, Neigenfind J, Basekow R, Wagner R,
Weber E, Mueller-Roeber B, Diehl S and B Kersten (2009) GabiPD: The
GABI Primary Database - a plant integrative ‘omics’
database. Nucleic Acids Research 37(Database issue):D954-9. PubMed
Kersten B and T Feilner (2009) Protein microarrays for
phosphorylation studies. In: Walker J, ed, Protein protocols handbook.
Humana Press, Totowa. Springer
Lohse M, Krueger P, Hannemann J, Nagel A, Stitt M, Walther D and
B Usadel (2008) Robin - Microarray Experimentanalyse leicht gemacht.
GenomXPress 3/08:16-17 (In German). GenomXPress
Arvidsson S, Kwasniewski M, Riano-Pachon DM and B Mueller-Roeber
B (2008) QuantPrime - a flexible tool for reliable high-throughput
primer design for quantitative PCR. BMC Bioinformatics 9(1):465.
PubMed
Balazadeh S, Riano-Pachon DM and B Mueller-Roeber (2008)
Transcription factors regulating leaf senescence in Arabidopsis
thaliana. Plant Biology. 10(s1):63-75. PubMed
Kersten B (2008) Time to search for kinase substrates. In:
Rakwal R, Agrawal GK, eds, Plant Proteomics: Technologies, Strategies,
and Applications:485-498. Wiley-Interscience, Hoboken, USA.
WILEY
Correa LGG, Riano-Pachon DM, Schrago CG, dos Santos RV,
Mueller-Roeber B and M Vincentz (2008) The role of bZIP transcription
factors in green plant evolution: Adaptive features emerging from four
founder genes. PLoS ONE. 3(8):e2944. PubMed
Neigenfind J, Gyetvai G, Basekow R, Diehl S, Achenbach U,
Gebhardt C, Selbig J and B Kersten (2008) Haplotype inference from
unphased SNP data in heterozygous polyploids based on SAT. BMC Genomics
9:356.
PubMed
Kersten B, Nagel A, Riano-Pachon DM, Neigenfind J, Weber E,
Wagner R and S Diehl (2008) Die GABI-Primaerdatenbank GabiPD - Komplexe
Integration von GABI-Daten aus Modell- und Nutzpflanzen. GenomXPress
1/08:17-19 (In German). GenomXPress
Riano-Pachon DM, Correa LGG, Trejos-Espinosa R and B
Mueller-Roeber (2008) Green transcription factors: a Chlamydomonas
overview. Genetics 179(1):31-9. PubMed
Kersten B and EE Wanker (2008) Klinische Proteomik. In: Ganten
D, Ruckpaul K, eds, Grundlagen der Molekularen Medizin:Section 3.1,
Springer, Berlin, Heidelberg, New York (In German). Springer
Feilner T and B Kersten (2007) Phosphorylation studies using
plant protein microarrays. In: Thiellement H, Zivy M, Damerval C,
Mechin V, eds, Plant Proteomics. Methods and Protocols. Series: Methods
in Molecular Biology 355:379-90. Humana Press Inc., Totowa. PubMed
Kersten B and T Feilner (2007) Generation of plant protein
micorarrays and investigation of antigen-antibody interactions. In:
Thiellement H, Zivy M, Damerval C, Mechin V, eds, Plant Proteomics.
Methods and Protocols. Series: Methods in Molecular Biology 355:365-78.
Humana Press Inc., Totowa. PubMed
Kersten B and T Feilner (2007) High-throughput identification of
plant protein kinase substrates. In: Šamaj J, Thelen J, eds,
Plant proteomics:53-70, Springer, Berlin, Heidelberg, New York. Springer
Kersten B, Agrawal GK, Iwahashi H and R Rakwal (2006) Plant
phosphoproteomics: A long road ahead. Proteomics 6(20):5517-5528. PubMed
Usadel B, Nagel A, Steinhauser D, Gibon Y, Blaesing OE, Redestig
H, Sreenivasulu N, Krall L, Hannah MA, Poree F, Fernie AR and M Stitt
(2006) PageMan: an interactive ontology tool to generate, display, and
annotate overview graphs for profiling experiments. BMC Bioinformatics
7:535.
PubMed
Urbanczyk-Wochniak E, Usadel B, Thimm O, Nunes-Nesi A, Carrari
F, Davy M, Blaesing O, Kowalczyk M, Weicht D, Polinceusz A, Meyer S,
Stitt M and AR Fernie (2006) Conversion of MapMan to allow the analysis
of transcript data from Solanaceous species: Effects of genetic and
environmental alterations in energy metabolism in the Leaf. Plant
Molecular Biology 60(5):773-92. PubMed
Wanker EE and B Kersten (2006) Proteomics: from proteins to
disease mechanisms and the development of novel therapeutic strategies.
In: Ganten D, Ruckpaul K, eds, Encyclopedic Reference of Genomics and
Proteomics in Molecular Medicine, Springer, Berlin, Heidelberg, New
York. Springer
Feilner T, Hultschig C, Lee J, Meyer S, Immink RGH, Koenig A,
Possling A, Seitz H, Beveridge A, Scheel D, Cahill DJ, Lehrach H,
Kreutzberger J and B Kersten (2005) High-throughput identification of
potential Arabidopsis mitogen-activated protein kinases substrates.
Molecular & Cellular Proteomics 4(10):1558-1568. PubMed
Usadel B, Nagel A, Thimm O, Redestig H, Blaesing OE,
Palacios-Rojas N, Selbig J, Hannemann J, Piques MC, Steinhauser D,
Scheible WR, Gibon Y, Morcuende R, Weicht D, Meyer S and M Stitt (2005)
Extension of the visualization tool MapMan to allow statistical
analysis of arrays, display of corresponding genes, and comparison with
known responses. Plant Physiology 138(3):1195-204. PubMed
Meyer S, Nagel A and C Gebhardt (2005) PoMaMo - A comprehensive
database for potato genome data. Nucleic Acids Research 33(Database
issue):D666-70. PubMed
Buerkle L, Meyer S, Dortay H, Lehrach H and A Heyl (2005) In
vitro recombination cloning of entire cDNA libraries in Arabidopsis
thaliana and its application to the yeast two-hybrid system. Functional
& Integrative Genomics 5(3):175-183. PubMed
Thimm O, Blaesing O, Gibon Y, Nagel A, Meyer S, Krueger P,
Selbig J, Mueller LA, Rhee SY and M Stitt (2004) MAPMAN: a user-driven
tool to display genomics data sets onto diagrams of metabolic pathways
and other biological processes. Plant Journal 37(6):914-39. PubMed
Selected as fast breaking paper in plant and
animal sciences: ESI
topics
(257 times cited in August 2009)
Rickert AM, Kim JH, Meyer S, Nagel A, Ballvora A, Oefner PJ and
C Gebhardt (2003) First-generation SNP/InDel markers tagging loci for
pathogen resistance in the potato genome. Plant Biotechnology Journal
1(6):399-410. PubMed
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Publications and Lectures of Birgit Kersten
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Lectures of Birgit Kersten
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Postranslational protein modifications: eLecture
(16:53 min)
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Phosphoproteomics – Strategies and methods: eLecture
(16:52 min)
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Publications of Birgit Kersten
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Riaño-Pachón DM, Kleessen S, Neigenfind J,
Durek P, Weber E, Walther D, Selbig J, Engelsberger W, Schulze W and B
Kersten (2010) Proteome-wide survey of phosphorylation patterns
affected by nuclear DNA polymorphisms in Arabidopsis thaliana. BMC
Genomics 11(1):411. PubMed
Durek P, Schmidt R, Heazlewood J, Jones A, MacLean D, Nagel A,
Kersten B and W Schulze (2010) PhosPhAt: The Arabidopsis thaliana
phosphorylation site database. An update. Nucleic Acids Research 38
(Database issue): D828-D834. PubMed
Pérez-Rodriguez P, Riaño-Pachón DM,
Corrêa LGG, Rensing S, Kersten B and B Mueller-Roeber (2010)
PlntTFDB: Updated content and new features in the Plant Transcription
Factor Database. Nucleic Acids Research 38 (Database issue):D822-7. PubMed
Kim JA, Cho K, Singh R, Jung YH, Jeong SH, Kim SH, Lee JE, Cho
YS, Agrawal GK, Rakwal R, Tamogami S, Kersten B, Jeon JS, An G and NS
Jwa (2009) Rice OsACDR1 (Oryza sativa Accelerated Cell Death and
Resistance 1) is a potential positive regulator of disease resistance.
Molecules and Cells 28, 431-439. PubMed
Kersten B, Agrawal GK, Durek P, Neigenfind J, Schulze W, Walther
D and R Rakwal (2009) Plant phosphoproteomics: An update. Proteomics
9(4):964-88. PubMed
Pajerowska-Mukhtar K, Stich B, Achenbach U, Ballvora A, Luebeck
J, Strahwald J, Tacke E, Hofferbert H-R, Ilarionova E, Bellin D,
Walkemeier B, Basekow R, Kersten B and C Gebhardt (2009) Single
nucleotide polymorphisms in the allene oxide synthase 2 gene are
associated with field resistance to late blight in populations of
tetraploid potato cultivars. Genetics 181(3):1115-27. PubMed
Kersten B and T Feilner (2009) Protein microarrays for
phosphorylation studies. In: Walker J, ed, Protein protocols handbook.
Humana Press, Totowa. Springer
Riano-Pachon DM, Nagel A, Neigenfind J, Basekow R, Wagner R,
Weber E, Mueller-Roeber B, Diehl S and B Kersten (2009) GabiPD: The
GABI Primary Database - a plant integrative ‘omics’
database. Nucleic Acids Research 37(Database issue):D954-9. PubMed
Kersten B (2008) Time to search for kinase substrates. In: Rakwal
R, Agrawal GK, eds, Plant Proteomics: Technologies, Strategies, and
Applications:485-498. Wiley-Interscience, Hoboken, USA.
WILEY
Neigenfind J, Gyetvai G, Basekow R, Diehl S, Achenbach U,
Gebhardt C, Selbig J and B Kersten (2008) Haplotype inference from
unphased SNP data in heterozygous polyploids based on SAT. BMC Genomics
9:356.
PubMed
Kersten B, Nagel A, Riano-Pachon DM, Neigenfind J, Weber E,
Wagner R and S Diehl (2008) Die GABI-Primaerdatenbank GabiPD - Komplexe
Integration von GABI-Daten aus Modell- und Nutzpflanzen. GenomXPress
1/08:17-19 (In German). GenomXPress
Kersten B and EE Wanker (2008) Klinische Proteomik. In: Ganten
D, Ruckpaul K, eds, Grundlagen der Molekularen Medizin:Section 3.1,
Springer, Berlin, Heidelberg, New York (In German). Springer
Feilner T and B Kersten (2007) Phosphorylation studies using
plant protein microarrays. In: Thiellement H, Zivy M, Damerval C,
Mechin V, eds, Plant Proteomics. Methods and Protocols. Series: Methods
in Molecular Biology 355:379-90. Humana Press Inc., Totowa. PubMed
Kersten B and T Feilner (2007) Generation of plant protein
micorarrays and investigation of antigen-antibody interactions. In:
Thiellement H, Zivy M, Damerval C, Mechin V, eds, Plant Proteomics.
Methods and Protocols. Series: Methods in Molecular Biology 355:365-78.
Humana Press Inc., Totowa. PubMed
Kersten B and T Feilner (2007) High-throughput identification of
plant protein kinase substrates. In: Šamaj J, Thelen J, eds,
Plant proteomics:53-70, Springer, Berlin, Heidelberg, New York. Springer
Kersten B, Agrawal GK, Iwahashi H and R Rakwal (2006) Plant
phosphoproteomics: A long road ahead. Proteomics 6(20):5517-5528. PubMed
Grelle G, Kostka S, Otto A, Kersten B, Genser KF, Mueller EC,
Waelter S, Boeddrich A, Stelzl U, Haenig C, Volkmer-Engert R, Landgraf
C, Alberti S, Hoehfeld J, Stroedicke M and EE Wanker (2006)
Identification of VCP/p97, CHIP and amphiphysin II interaction partners
using membrane-based human proteome arrays. Molecular & Cellular
Proteomics 5(2):234-244. PubMed
Wanker EE and B Kersten (2006) Proteomics: from proteins to
disease mechanisms and the development of novel therapeutic strategies.
In: Ganten D, Ruckpaul K, eds, Encyclopedic Reference of Genomics and
Proteomics in Molecular Medicine, Springer, Berlin, Heidelberg, New
York. Springer
Kersten B, Wanker EE, Hoheisel JD and P Angenendt (2005)
Multiplex approaches in protein microarray technology. Expert Review of
Proteomics 2(4):499-510. PubMed
Feilner T, Hultschig C, Lee J, Meyer S, Immink RGH, Koenig A,
Possling A, Seitz H, Beveridge A, Scheel D, Cahill DJ, Lehrach H,
Kreutzberger J and B Kersten (2005) High-throughput identification of
potential Arabidopsis mitogen-activated protein kinases substrates.
Molecular & Cellular Proteomics 4(10):1558-1568. PubMed
Kramer A, Feilner T, Possling A, Radchuk V, Weschke W, Buerkle L
and B Kersten (2004) Identification of barley CK2alpha targets by using
protein microarray technology. Phytochemistry 65(12):1777-1784. PubMed
Kersten B, Feilner T, Angenendt P, Giavalisco P, Brenner W and L
Buerkle (2004) Proteomic approaches in plant biology. Current
Proteomics 1(2):131-144. Bentham
Kersten B, Possling A, Blaesing F, Mirgorodskaya E, Gobom J and
H Seitz (2004) Protein microarray technology and UV-crosslinking
combined with mass spectrometry for the analysis of protein-DNA
interactions. Analytical Biochemistry 331:303-313. PubMed
Feilner T, Kreutzberger J, Niemann B, Kramer A, Possling A,
Seitz H and B Kersten (2004) Proteomic studies using microarrays.
Current Proteomics 1(4):283-295. Bentham
Kersten B, Feilner T, Kramer A, Wehrmeyer S, Possling A, Witt I,
Zanor MI, Stracke R, Lueking A, Kreutzberger J, Lehrach H and DJ Cahill
(2003) Generation of Arabidopsis protein chips for antibody and serum
screening. Plant Molecular Biology 52(5):999-1010. PubMed
Buerkle L, Feilner T, Brenner W, Giavalisco P, Lehrach H and B
Kersten (2003) Genomic and proteomic approaches in plant research. In:
Pandalai SG, ed, Recent Research Developments in Plant Molecular
Biology 1:239-263, Research Signpost, Kerala, India. Research
Signpost
Kersten B, Buerkle L, Kuhn EJ, Giavalisco P, Konthur Z, Lueking
A, Walter G, Eickhoff H and U Schneider (2002) Large-scale plant
proteomics. Plant Molecular Biology 48:(1-2) 133-141. PubMed
Kersten B, Kasper P, Brendler-Schwaab SY and L Mueller (2002)
Use of the photo-micronucleus assay in Chinese hamster V79 cells to
study photochemical genotoxicity. Mutation Research 519(1-2):49-66. PubMed
Kersten B, Niemann B and S Jahn (2001) Development of
single-chain Fv fragments from a human anti-double-stranded DNA
antibody to study the influence of somatic mutations on antigen
binding. Experimental and Clinical Immunogenetics 18(2):96-99. PubMed
Mueller L, Brendler-Schwaab S, Kasper P and B Kersten (2001) In
vitro methods for phototoxicity and photocarcinogenicity testing of
drugs. Altex-Alternativen Zu Tierexperimenten 18(2):117-121. PubMed
Zhang J, Kersten B, Kasper P and L Mueller (2001)
Photogenotoxicity and apoptosis in human HaCaT keratinocytes induced by
8-methoxypsoralen and lomefloxacin. Environmental Mutagen Research
23(Special issue):89-96. ingentaconnect
Kersten B, Kasper P, Brendler-Schwaab SY and L Mueller (2001)
Effects of visible light absorbing chemicals in the photo-micronucleus
test in Chinese hamster V79 cells. Environmental Mutagen Research
23(Special issue):97-102. ScienceDirect
Kersten B, Zhang J, Brendler-Schwaab SY, Kasper P and L Mueller
(1999) The application of the micronucleus test in Chinese hamster V79
cells to detect drug-induced photogenotoxicity. Mutation Research
445(1):55-71. PubMed
Mueller L, Kasper P, Kersten B and J Zhang (1998) Photochemical
genotoxicity and photochemical carcinogenesis-Two sides of a coin?
Toxicology Letters 102-103:383-387. PubMed
Leibiger H, Kersten B, Albersheim P and A Darvill (1998)
Structural characterization of the oligosacharides of a human
monoclonal anti-lipopolysaccharide immunoglobulin M. Glycobiology
8(5):497-507. PubMed
Tilgner J, Golembowski S, Kersten B, Sterry W and S Jahn (1997)
VH genes expressed in peripheral blood IgE-producing B cells from
patients with atopic dermatitis. Clinical and Experimental Immunology
107(3):528-535. PubMed
Mueller-Tegethoff K, Kersten B, Kasper P and L Mueller (1997)
Application of the in vitro rat hepatocyte micronucleus assay in
genetic toxicology testing. Mutation Research 392(1-2):125-138. PubMed
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Selected publications referencing GabiPD
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For an up to date list check Google
Scholar
Pajerowska-Mukhtar K, Stich B, Achenbach U, Ballvora A, Luebeck
J, Strahwald J, Tacke E, Hofferbert H-R, Ilarionova E, Bellin D,
Walkemeier B, Basekow R, Kersten B and C Gebhardt (2009) Single
nucleotide polymorphisms in the allene oxide synthase 2 gene are
associated with field resistance to late blight in populations of
tetraploid potato cultivars. Genetics 181(3):1115-27. PubMed
Vizeacoumar FJ, Chong Y, Boone C and BJ Andrews (2009) A picture
is worth a thousand words: genomics to phenomics in the yeast
Saccharomyces cerevisiae. FEBS Lett. 583(11):1656-61. PubMed
Achenbach U, Paulo J, Ilarionova E, Lübeck J, Strahwald J,
Tacke E, Hofferbert HR and C Gebhardt (2008) Using SNP markers to
dissect linkage disequilibrium at a major quantitative trait locus for
resistance to the potato cyst nematode Globodera pallida on potato
chromosome V. Theor Appl Genet. 118(3):619-29. PubMed PMID: 19020852. PubMed
Pestsova E, Meinhard J, Menze A, Fischer U, Windhövel A and
P Westhoff (2008) Transcript profiles uncover temporal and
stress-induced changes of metabolic pathways in germinating sugar beet
seeds. BMC Plant Biol. 8:122. PubMed
Neigenfind J, Gyetvai G, Basekow R, Meyer S, Achenbach U,
Gebhardt C, Selbig J and B Kersten (2008) Haplotype inference from
unphased SNP data in heterzygous polyploids based on SAT. BMC Genomics
9:356. PubMed
Lange C, Holtgräwe D, Schulz B, Weisshaar B, Himmelbauer H.
(2008) Construction and characterization of a sugar beet (Beta
vulgaris) fosmid library. Genome 51(11):948-51. PubMed
Tellstroem V, Usadel B, Thimm O, Stitt M, Kuester H and K
Niehaus (2007) The lipopolysaccharide of Sinorhizobium meliloti
suppresses defense-associated gene expression in cell cultures of the
host plant Medicago truncatula. Plant Physiol. 143(2):825-37. PubMed
Schneider K, Kulosa D, Soerensen TR, Moehring S, Heine M,
Durstewitz G, Polley A, Weber E, Jamsari, Lein J, Hohmann U, Tahiro E,
Weisshaar B, Schulz B, Koch G, Jung C and M Ganal (2007) Analysis of
DNA polymorphisms in sugar beet (Beta vulgaris L.) and development of
an SNP-based map of expressed genes. Theor Appl Genet. 115(5):601-15. PubMed
Ballvora A, Joecker A, Viehoever P, Ishihara H, Paal J, Meksem
K, Bruggmann R, Schoof H, Weisshaar B and C Gebhardt (2007) Comparative
sequence analysis of Solanum and Arabidopsis in a hot spot for pathogen
resistance on potato chromosome V reveals a patchwork of conserved and
rapidly evolving genome segments. BMC Genomics 2(8):112. PubMed
Stein N, Prasad M, Scholz U, Thiel T, Zhang H, Wolf M, Kota R,
Varshney RK, Perovic D, Grosse I and A Graner (2007) A 1,000-loci
transcript map of the barley genome: new anchoring points for
integrative grass genomics. Journal of Theoretical and Applied Genetics
114:823-839. PubMed
Sattarzadeh A, Achenbach U, Luebeck J, Strahwald J, Tacke E,
Hofferbert HR, Rothsteyn T and C Gebhardt (2006) Single nucleotide
polymorphism (SNP) genotyping as basis for developing a PCR-based
marker highly diagnostic for potato varieties with high resistance to
Globodera pallida pathotype Pa2/3. Mol. Breeding 18:301-312. Springer
Hilson P (2006) Cloned sequence repertoires for small- and
large-scale biology. Trends in Plant Science 11:133-141. PubMed
Urbanczyk-Wochniak E, Usadel B, Thimm O, Nunes-Nesi A, Carrari
F, Davy M, Blasing O, Kowalczyk M, Weicht D, Polinceusz A, Meyer S,
Stitt M and AR Fernie (2006) Conversion of MapMan to allow the analysis
of transcript data from Solanaceous species: effects of genetic and
environmental alterations in energy metabolism in the leaf. Plant Mol.
Biol. 60(5):773-92. PubMed
Feilner T, Hultschig C, Lee J, Meyer S, Immink RG, Koenig A,
Possling A, Seitz H, Beveridge A, Scheel D, Cahill DJ, Lehrach H,
Kreutzberger J and B Kersten (2005) High throughput identification of
potential Arabidopsis mitogen-activated protein kinases substrates.
Molecular and Cellular Proteomics 4(10):1558-68. PubMed
Giavalisco P, Wilson D, Kreitler T, Lehrach H, Klose J, Gobom J
and P Fucini (2005) High heterogeneity within the ribosomal proteins of
the Arabidopsis thaliana 80S ribosome. Plant Mol Biol. 57(4):577-91. PubMed
Giavalisco P, Nordhoff E, Kreitler T, Kloppel KD, Lehrach H,
Klose J and J Gobom (2005) Proteome analysis of Arabidopsis thaliana by
two-dimensional gel electrophoresis and matrix-assisted laser
desorption/ionisation-time of flight mass spectrometry. Proteomics
5(7):1902-13. PubMed
Buerkle L, Meyer S, Dortay H, Lehrach H and A Heyl (2005) In
vitro recombination cloning of entire cDNA libraries in Arabidopsis
thaliana and its application to the yeast two-hybrid system. Functional
& Integrative Genomics 5(3), 175-183. PubMed
Meyer S, Nagel A and C Gebhardt (2005) PoMaMo-a comprehensive
database for potato genome data. Nucleic Acids Research 33(Database
issue):D666-70. PubMed
Nagel A, Usadel B, Thimm O, Redestig H, Blaesing OE,
Palacios-Rojas N, Selbig J, Hannemann J, Piques MC, Steinhauser D,
Scheible WR, Gibon Y, Morcuende R, Weicht D, Meyer S and M Stitt (2005)
Extension of the visualization tool MapMan to allow statistical
analysis of arrays, display of corresponding genes, and comparison with
known responses. Plant Physiology 138(3):1195-204. PubMed
Thimm O, Blaesing O, Gibon Y, Nagel A, Meyer S, Krueger P,
Selbig J, Mueller LA, Rhee SY and M Stitt (2004) MAPMAN: a user-driven
tool to display genomics data sets onto diagrams of metabolic pathways
and other biological processes. Plant Journal 37(6):914-39 (fast
breaking paper). PubMed
Rickert AM, Jeong HK, Meyer S, Nagel A, Ballvora A, Oefner PJ
and C Gebhardt (2003) First-generation SNP/InDel markers tagging loci
for pathogen resistance in the potato genome. Plant Biotechnology
Journal 1(6):399-410. PubMed
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