REFERENCE:
Bunk, B., Biedendieck, R., Jahn, D. & Vary, P. S. (2009)
Bacillus megaterium and other Bacilli, Industrial Applications
in "Encyclopedia of Industrial Biotechnology"
(Flickinger, M. C., Ed.)
Wiley, in press.
Biedendieck, R., Bunk, B., Fürch, T., Franco-Lara, E., Jahn, M. & Jahn, D. (2009)
Systems Biology of Recombinant Protein Production in Bacillus megaterium in "Advances in Biochemical Engineering / Biotechnology"
(Scheper, T., Ed.); Vol. 113 - Biosystems Engineering (Wittmann, C., Ed.)
Springer, Berlin, Heidelberg in press.
PUBMED: 20109147
Haddad, I., Hiller, K., Frimmersdorf, E., Benkert, B., Schomburg, D. & Jahn, D. (2009)
An Emergent Self-organizing Map Based Analysis Pipeline for Comparative Metabolome Studies.
In Silico Biology 9:149 - 162
PUBMED: 18974177
Grote, A., Klein, J., Retter, I., Haddad, I., Behling, S., Bunk, B., Biegler, I., Yarmolinetz, S., Jahn, D. & Münch, R. (2008)
PRODORIC (release 2009): a database and tool platform for the analysis of gene regulation in prokaryotes.
Nucleic Acids Res. Database issue D61-5.
PUBMED:
Klein, J., Münch, R., Biegler, I., Haddad, I., Retter, I. and Jahn, D. (2009)
Strepto-DB, a database for comparative genomics of group A (GAS) and B (GBS) streptococci, implemented with the novel database platform ‘Open Genome Resource’ (OGeR)
Nucleic Acids Res. Database issue D494-8.
PUBMED: 18440972
Klein, J., Leupold, S., Münch, R., Pommerenke, C., Johl, T., Kärst, U., Jänsch, L., Jahn, D. and Retter, I. (2008)
ProdoNet: identification and visualization of prokaryotic gene regulatory and metabolic networks.
Nucleic Acids Res. 36:W460-464.
PUBMED: 18928204
Pommerenke, C., Gabriel, I., Bunk, B., Münch, R., Haddad, I., Tielen, P., Wagner-Döbler I. & Jahn D. (2008)
ROSY - a flexible and universal database and bioinformatics tool platform for Roseobacter related species.
In Silico Biol. 8:177-86.
PUBMED: 17675503
Retter, I., Chevillard, C., Scharfe, M., Conrad, A., Hafner, M., Im, T.H., Ludewig, M., Nordsiek, G., Severitt, S., Thies, S., Mauhar, A., Blöcker, H., Müller, W. & Riblet, R. (2007)
Sequence and Characterization of the Immunoglobulin Heavy Chain Constant and Partial Variable Region of the Mouse Strain 129S1.
J. Immunol. 179:2419-27.
Link
Klawonn, F., Choi, C., Benkert, B., Thielen, B., Münch, R., Schobert, M., Schomburg, D. & Jahn, D. (2007)
A Likelihood Ratio Test for Differential Metabolic Profiles in Multiple Intensity Measurements.
KES2007 Invited Sessions k07is-136
.
REFERENCE: Link
Choi, C., Münch, R., Bunk, B., Barthelmes, J., Ebeling, C., Schomburg, D., Schobert, M. & Jahn, D. (2007)
Combination of a data warehouse concept with web services for the establishment of the Pseudomonas systems biology database SYSTOMONAS.
Journal of Integrative Bioinformatics 4:48.
PUBMED: 17202169
Choi, C., Muench, R., Leupold, S., Klein, J., Siegel, I., Thielen, B., Benkert, B., Kucklick, M., Schobert, M., Barthelmes, J., Ebeling, C., Haddad, I., Scheer, M., Grote, A., Hiller, K., Bunk, B., Schreiber, K., Retter, I., Schomburg, D. & Jahn, D. (2006)
SYSTOMONAS - an integrated database for systems biology analysis of Pseudomonas.
Nucleic Acid Res. 35(Database Issue), D533-D537.
PUBMED: 17046977
Bunk, B., Kucklick, M., Jonas, R., Munch, R., Schobert, M., Jahn, D. & Hiller, K. (2006)
MetaQuant: a tool for the automatic quantification of GC/MS based metabolome data.
Bioinformatics. 22:2962-2965.
PUBMED: 16845060
Scheer, M., Klawonn, F., Münch, R., Grote, A., Hiller, K., Choi, C., Koch, I., Schobert, M., Härtig, E., Klages, U. & Jahn, D. (2006)
JProGO: A novel tool for the functional interpretation of prokaryotic microarray data using Gene Ontology information.
Nucleic Acids Res. 34(web server issue):W510-505
REFERENCE: Link
Mathiak, B., Kupfer, A., Münch, R. Täubner, C. & Eckstein S. (2006)
Improving Literature Preselection by Searching for Images.
Lecture Notes in Computer Science 3886
, 18-28.
PUBMED: 16428414
Reents, H., Münch, R., Dammeyer, T., Jahn, D. & Härtig, E. (2005)
The Fnr Regulon of Bacillus subtilis.
J. Bacteriol., 188, 1103-1112.
PUBMED: 16109747
Münch, R., Hiller, K., Grote, A., Scheer, M., Klein, J., Schobert, M. & Jahn, D. (2005)
Virtual Footprint and PRODORIC: an integrative framework for regulon prediction in prokaryotes.
Bioinformatics , 21, 4187-4189.
PUBMED: 15980527
Grote, A., Hiller, K., Scheer, M., Münch, R., Nörtemann, B., Hempel, D.C. & Jahn D. (2005)
JCat: a novel tool to adapt codon usage of a target gene to its potential expression host.
Nucleic Acids Res. 33, 526-531.
PUBMED: 15690044
Randau, L., Münch, R., Hohn, M., Jahn, D. & Söll, D. (2005)
Nanoarchaeum equitans creates functional tRNA from separate genes encoding their 5'- and 3'-halves.
Nature 433, 537-541.
PUBMED: 15608286
Retter, I., Althaus, H.H., Münch, R. & Müller, W. (2005)
VBASE2, an integrative V gene database.
Nucleic Acids Res.33, 671-674.
PUBMED: 15375128
Härtig, E., Geng, H., Hartmann, A., Hubacek, A., Münch, R., Ye, R. W., Jahn, D. & Nakano M. M. (2004)
Bacillus subtilis ResD Induces Expression of the Potential Regulatory Genes yclJK upon Oxygen Limitation.
J. Bacteriol. 186, 6477-6484.
PUBMED: 15215414
Hiller, K., Grote, A., Scheer, M., Münch, R. & Jahn, D. (2004)
PrediSi: prediction of signal peptides and their cleavage positions.
Nucleic Acids Res. 32, 375-379.
PUBMED: 12824438
Hiller, K., Schobert, M., Hundertmark, C., Jahn, D. Münch, R. (2003)
JVirGel: Calculation of virtual two-dimensional protein gels.
Nucleic Acids Res. 31, 3862-3865.
PUBMED: 12519998
Münch, R., Hiller, K., Barg, H., Heldt, D., Linz, S., Wingender, E. & Jahn, D. (2003)
PRODORIC: Prokaryotic Database of Gene Regulation.
Nucleic Acids Res. 31, 266-269.
PUBMED: 12520026
Matys, V., Fricke, E., Geffers, R., Gossling, E., Haubrock, M., Hehl, R., Hornischer, K., Karas, D., Kel, A.E., Kel-Margoulis, O.V., Kloos, D.U., Land, S., Lewicki-Potapov, B., Michael, H., Münch, R., Reuter, I., Rotert, S., Saxel, H., Scheer, M., Thiele, S. & Wingender, E. (2003)
TRANSFAC: transcriptional regulation, from patterns to profiles.
Nucleic Acids Res. 31, 374-378.
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