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The Plant Data Warehouse group was one of the research groups of the Bioinformatics Centre Gatersleben-Halle (BIC-GH) from May 2002 through October 2007. The Plant Data Warehouse and the Plant Bioinformatics Portal were developed in collaboration with the Bioinformatics group at IPK and Henrik Bachmann, Even Langer, and colleagues from B.I.M.-Consulting GmbH in Magdeburg, who were responsible for the infrastructure, data integration, and all technical issues of the project. The Plant Data Warehouse combines genotypic, phenotypic, taxonomic, and expression data from both IPK-internal and publicly-available data sources together with software for data analysis and modeling. All data and software, supplemented by software from the other BIC-GH groups Pattern Recognition and Network Analysis at the IPK as well as Bioinformatics & Mass Spectrometry at the Leibniz Institute of Plant Biochemistry at Halle, are available via the Plant Bioinformatics Portal.
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| 2007 |
STEIN N., M. PRASAD, U. SCHOLZ, T. THIEL, ZHANG H., M. WOLF, R. KOTA, R. K. VARSHNEY, D. PEROVIC, I. GROSSE & A. GRANER
| A 1000 loci transcript map reveals insight into barley genome evolution. TAG - Theoretical and Applied Genetics 114(5):823-39. |
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| 2007 |
LAURENT, V., P. DEVAUX, T. THIEL, F. VIARD, S. MIELORDT, P. TOUZET & M. C. QUILLET
| Comparative effectiveness of sugar beet microsatellite markers isolated from genomic libraries and GenBank ESTs to map the sugar beet genome. TAG - Theoretical and Applied Genetics, Online Edition, DOI 10.1007/s00122-007-0609-y |
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| 2007 |
S. POSCH, J. GRAU, A. GOHR, I. BEN-GAL, A.E. KEL & I. GROSSE
| Recognition of cis-regulatory elements with vombat. Bioinform Comput Biol. Apr; 5(2B): 561-77. |
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| 2006 |
GRAU J., I. BEN-GAL, S. POSCH & I. GROSSE
| VOMBAT: prediction of transcription factor binding sites using variable order Bayesian trees. Nucleic Acids Res. 34 (Web Server issue), W529-33. |
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| 2006 |
GROSSE I.
| Computational Identification of Transcription Factor Binding Sites with Variable Order Bayesian Networks. Proceedings of the Fifth International Conference on Bioinformatics of Genome Regulation and Structure, BGRS’ 2006, Volume 3, Novosibirsk, Russia, 317. |
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| 2006 |
MIELORDT S., I. GROSSE & J. KLEFFE
| Data Structures for Genome Annotation, Alternative Splicing, and Validation. In: Ulf Leser, Felix Naumann & Barbara A. Eckman (Eds.): Data Integration in the Life Sciences, Third International Workshop, DILS 2006, Hinxton, UK, July 20-22, 2006, Proceedings. Lecture Notes in Bioinformatics 4075, Springer-Verlag Berlin, Heidelberg, 114-123. |
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| 2006 |
VARSHNEY R.K., I. GROSSE, U. HAHNEL, R. SIEFKEN, M. PRASAD, N. STEIN, P. LANGRIDGE, L. ALTSCHMIED & A. GRANER
| Genetic mapping and BAC assignment of EST-derived SSR markers shows non-uniform distribution of genes in the barley genome. Theor Appl Genet. 113 (2): 239-50. |
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| 2006 |
WEISE S., I. GROSSE, C. KLUKAS, D. KOSCHUETZKI, U. SCHOLZ, F. SCHREIBER & B.H. JUNKER
| Meta-All: a system for managing metabolic pathway information. BMC Bioinformatics 7: 465. |
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| 2006 |
T. FUNKE, S. WEISE, H. KNÜPFFER & I. GROSSE
| Ein neues Gesicht für die Europäische Gerstendatenbank (EBDB). Vorträge für Pflanzenzüchtung 70: 79-80. |
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| 2006 |
A. STEPHANIK, H. BACHMANN, T. FUNKE, C. KUENNE, E. LANGER, T. THIEL, S. WEISE & I. GROSSE
| Das Plant Bioinformatics Portal. Vorträge für Pflanzenzüchtung 70: 81-83. |
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| 2006 |
I. GROSSE, T. FUNKE, C. KUENNE, S. NEUMANN, A. STEPHANIK, T. THIEL & S. WEISE
| Integrative Datenanalyse mit dem Plant Data Warehouse. Vorträge für Pflanzenzüchtung 70: 50-53. |
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| 2005 |
BEN-GAL I., A. SHANI, A. GOHR, J. GRAU, S. ARVIV, A. SHMILOVICI, S. POSCH & I. GROSSE
| Identification of transcription factor binding sites with variable-order Bayesian networks. Bioinformatics 21 (11): 2657-2666. |
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| 2005 |
KÜNNE C., M. LANGE, T. FUNKE, H. MIEHE, T. THIEL, I. GROSSE & U. SCHOLZ
| CR-EST: a resource for crop ESTs. Nucleic Acids Research 33, Database issue D619-21 |
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| 2005 |
PODOBNIK B., P. CH. IVANOV, V. JAZBINSEK, Z. TRONTELJ, H. E. STANLEY & I. GROSSE
| Power-law correlated processes with asymmetric distributions. Physical Review E 71, 025104. |
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| 2005 |
PODOBNIK B., P. CH. IVANOV, K. BILJAKOVIC, D. HORVATIC, H. E. STANLEY & I. GROSSE
| Fractionally integrated process with power-law correlations in variables and magnitudes. Physical Review E 72, 026121. |
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| 2004 |
BAUER, P., T. THIEL, M. KLATTE, Z. BERECZKY, T. BRUMBAROVA, R. HELL & I. GROSSE
| Analysis of sequence, map position and gene expression reveals conserved essential genes for iron uptake in Arabidopsis and tomato. Plant Physiology 136 (4): 4169-83. |
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| 2004 |
KRAPIVSKY, P. L., E. BEN-NAIM & I. GROSSE
| Stable distributions in stochastic fragmentation. Journal of Physics A 37 (8): 2863-2880. |
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| 2004 |
LI, W., & I. GROSSE
| Comments on "linguistic features in eukaryotic genomes. Complexity 9 (4): 10-11. |
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| 2004 |
LI, W., F. SUN & I. GROSSE
| Extreme value distribution based gene selection criteria for discriminant microarray data analysis using logistic regression. Journal of Computational Biology 11 (2-3): 215-26. |
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| 2004 |
LONG, D. D., I . GROSSE & K. A. MARX
| Coding and non-coding DNA thermal stability differences in eukaryotes studied by melting simulation, base shuffling and DNA nearest neighbor frequency analysis. Biophys. Chem. 110 (1-2): 25-38. |
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| 2004 |
PODOBNIK , B., P. C . IVANOV, I. GROSSE, K. MATIA & H. E. STANLEY
| ARCH-GARCH approaches to modeling high-frequency financial data. Physica A 344: 216-220. |
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| 2004 |
THIEL, T., R. KOTA, I. GROSSE, N. STEIN & A. GRANER
| SNP2CAPS: a SNP and InDel analysis tool for CAPS marker development. Nucl. Acids Res. 32: No. 1 e5. |
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| 2004 |
HOLSTE, D., I. GROSSE, S. BEIRER, P. SCHIEG & H. HERZEL
| Repeats and correlations in human DNA sequences. Physical Review E 67, 061913. |
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| 2003 |
KOTA, R., S. RUDD, A. FACIUS, G. KOLESOV, T. THIEL, H. ZHANG, N. STEIN, K. MAYER & A. GRANER
| Snipping polymorphisms from large EST collections in barley (Hordeum vulgare L.). Mol. Gen. Genomics 270: 224-233. |
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| 2003 |
LI, W. & I. GROSSE
| Gene selection criterion for discriminant microarray data analysis based on extreme value distributions. Proceedings of the seventh annual international conference on computational molecular biology. ACM Press, 217-223. |
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| 2003 |
THIEL, T., W. MICHALEK, R. K. VARSHNEY & A. GRANER
| Exploiting EST databases for the development and characterization of gene-derived SSR-markers in barley (Hordeum vulgare L.). Theor. Appl. Genet. 106 (3): 411-422. |
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| 2003 |
WEISE, S., N. BIERMANN, S. FLEMMING, J. VORWALD, T. J. L. VAN HINTUM, H. KNÜPFFER & I. GROSSE
| Proposal for improvement of PGR data exchange through XML. Proceedings of the EPGRIS final conference, 11-13, Prague, Czech Republic. |
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