Structural Bioinformatics Group


Editorial responsibility by Robert Preissner.
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S. Klaeger, S. Heinzlmeir, M. Wilhelm, ..., Bjoern-O. Gohlke, Robert Preissner, ..., Bernhard Kuster
The target landscape of clinical kinase drugs
Science 2017 Dec 1., IF: 37.205, Science-Link

Siramshetty V. B., Eckert A., Gohlke B. O., Goede A., Chen Q., Devarakonda P., Preissner S. and Preissner R.
SuperDRUG2: A One Stop Resource for Approved/Marketed Drugs
Nucleic Acids Res. 2017 Nov 11., PMID: 29140469, IF: 10.162

Lemfack M. C., Gohlke B. O., Toguem S. M. T., Preissner S., Piechulla B. and Preissner R.
mVOC 2.0: a database of microbial volatiles
Nucleic Acids Res. 2017 Nov 2., PMID: 29106611, IF: 10.162

Siramshetty V.B., Chen Q. and Preissner R.
WITHDRAWN – A One-stop Source for Drug Withdrawals
Pharmazeutische Medizin – Journal of the German Society of Pharmaceutical Medicine, 2017 Oct.

Siramshetty V.B. and Preissner R.
Drugs as habitable planets in the space of ‘dark chemical matter’
Drug Discov Today. 2017 Jul 11. pii: S1359-6446(17)30097-1., PMID: 28709991, IF: 6.369

Blex C, Michaelis S, Schrey AK, Furkert J, Eichhorst J, Bartho K, Quast FG, Marais A, Hakelberg M, Gruber U, Niquet S, Popp O, Kroll F, Sefkow M, Schülein R, Mathias D, Köster H
Targeting G-protein-coupled receptors by Capture Compound Mass Spectrometry (CCMS) - a case study with sertindole
Chembiochem. 2017 Aug 17;18(16):1639-1649., PMID: 28557180, IF: 2.85

Hertel M., Hartwig S., Schmidt-Westhausen A.M., Preissner R., Paris S., and Preissner S.
Volatile organic compounds in the breath of oral candidiasis patients: a pilot study.
Clin Oral Investig. 2017 Jun 10., PMID: 28601915, IF: 2.207

Schrey A. K., Nickel-Seeber J., Drwal M. N., Zwicker P., Schultze N., Haertel B. and Preissner R.
Computational Prediction of Immune Cell Cytotoxicity
Food Chem Toxicol. 2017 Sep;107(Pt A):150-166, PMID: 28558974, IF: 3.584

Manisha Juneja, Dennis Kobelt, Wolfgang Walther, Cynthia Voss, Janice Smith, Edgar Specker, Martin Neuenschwander, Björn-Oliver Gohlke, Mathias Dahlmann, Silke Radetzki, Robert Preissner, Jens Peter von Kries, Peter Michael Schlag, Ulrike Stein
Statin and Rottlerin small molecule inhibitors restrict colon cancer progression and metastasis via MACC1
PLoS Biol. 2017 Jun 1;15(6):e2000784., PMID: 28570591, IF: 8.668

Hartwig S, Raguse JD, Pfitzner D, Preissner R, Paris S, Preissner S.
Volatile Organic Compounds in the Breath of Oral Squamous Cell Carcinoma Patients: A Pilot Study
Otolaryngol Head Neck Surg. 2017 May 1:194599817711411., PMID: 28585450, IF: 2.021

Pries A. R., Naoum A., Habazettl H., Dunkel M., Preissner R., Coats C. J., Tornada A., Orso F., Van de Werf F. and Wood D. A.
CardioScape mapping the cardiovascular funding landscape in Europe.
Eur Heart J ehx106. 2017 Apr 25., PMID: 28449050, IF: 20.212

Banerjee P, Schrey A. K. and Preissner R.
Computational Methods for the Prediction of Chemical Toxicity
Pharmazeutische Medizin – Journal of the German Society of Pharmaceutical Medicine, 2017 Mar 21, ISSN 2191-6039

Gillissen B, Richter A, Richter A, Preissner R, Schulze-Osthoff K, Essmann F and Daniel PT
Bax/Bak-independent mitochondrial depolarization and reactive oxygen species induction by sorafenib overcome resistance to apoptosis in renal cell carcinoma.
J Biol Chem. 2017 Apr 21;292(16):6478-6492., PMID: 28154184, IF: 4.573


Erukainure OL, Hafizur RM, Choudhary MI, Adhikari A, Mesaik AM, Atolani O, Banerjee P, Preissner R, Muhammad A and Islam MS.
Anti-diabetic effect of the ethyl acetate fraction of Clerodendrum volubile: protocatechuic acid suppresses phagocytic oxidative burst and modulates inflammatory cytokines
Biomed Pharmacother. 2016 Dec 21;86:307-315., PMID: 28011378, IF: 2.326

Seeland U, Nauman AT, Cornelis A, Ludwig S, Dunkel M, Kararigas G and Regitz-Zagrosek V.
eGender--from e-Learning to e-Research: a web-based interactive knowledge-sharing platform for sex- and gender-specific medical education
Biol Sex Differ. 2016 Oct 14;7(Suppl 1):39., PMID: 27785342, IF: 3.237

Banerjee P., Siramshetty V.B., Drwal M.N. and Preissner R.
Computational methods for prediction of in vitro effects of new chemical structures
J Cheminform. 2016 Sep 29;8:51., PMID: 28316649, IF: 3.949

Ismer J., Rose AS., Tiemann JK., Goede A., Preissner R. and Hildebrand PW.
SL2: an interactive webtool for modeling of missing segments in proteins
Nucleic Acids Res. 2016 Jul 8;44(W1):W390-4., PMID: 27105847, IF: 9.202

Preissner S., Kastner I., Schütte E., Hartwig S., Schmidt-Westhausen A. M., Paris S., Preissner R. and Hertel M.
Adjuvant antifungal therapy using tissue tolerable plasma on oral mucosa and removable dentures in oral candidiasis patients: a randomised double-blinded split-mouth pilot study.
Mycoses. 2016 Jul;59(7):467-75., PMID: 26932256, IF: 2.239

Riehle M., Büscher A. K., Gohlke B. O., Kaßmann M., Kolatsi-Joannou M., Bräsen J. H., Nagel M., Becker J. U., Winyard P., Hoyer P. F., Preissner R., Krautwurst D., Gollasch M., Weber S. and Harteneck C.
TRPC6 G757D Loss-of-Function Mutation Associates with FSGS
J Am Soc Nephrol. 2016 Sep;27(9):2771-83., PMID: 26892346, IF: 9.343

Klaeger S., Gohlke B., Perrin J., Gupta V., Heinzlmeir S., Helm D., Qiao H., Bergamini G., Handa H., Savitski M. M., Bantscheff M., Medard G., Preissner R. and Kuster B.
Chemical Proteomics Reveals Ferrochelatase as a Common Off-target of Kinase Inhibitors
ACS Chem Biol. 2016 May 20;11(5):1245-54., PMID: 26863403, IF: 5.331

Bäcker C., Drwal M. N., Preissner R. and Lindequist U.
Inhibition of DNA-Topoisomerase I by Acylated Triterpene Saponins from Pittosporum angustifolium Lodd.
Nat Prod Bioprospect. 2016 Apr;6(2):141-7., PMID: 26803837

Hertel M., Hartwig S., Schütte E., Gillissen B., Preissner R., Schmidt-Westhausen A. M., Paris S., Kastner I. and Preissner S.
Identification of signature volatiles to discriminate Candida albicans, glabrata, krusei and tropicalis using gas chromatography and mass spectrometry.
Mycoses. 2016 Feb;59(2):117-26., PMID: 26667499, IF: 2.24

Hertel M., Preissner R., Gillissen B., Schmidt-Westhausen A. M., Paris S. and Preissner S.
Detection of signature volatiles for cariogenic microorganisms.
Eur J Clin Microbiol Infect Dis. 2016 Feb;35(2):235-44., PMID: 26610336, IF: 2.67

Gohlke B. O., Nickel J., Otto R., Dunkel M. and Preissner R.
CancerResource--updated database of cancer-relevant proteins, mutations and interacting drugs
Nucleic Acids Res. 2016 Jan 4;44(D1):D932-7., PMID: 26590406, IF: 9.11

Siramshetty V. B., Nickel J., Omieczynski C., Gohlke B. O., Drwal M. N. and Preissner R.
WITHDRAWN - a resource for withdrawn and discontinued drugs
Nucleic Acids Res. 2016 Jan 4;44(D1):D1080-6., PMID: 26553801, IF: 9.11


Preissner S., Kostka E., Mokross M., Kersten N.V., Blunck U. and Preissner R.
DBEndo: a web-based endodontic case management tool.
BMC Res Notes 8:685 (2015).

Gohlke B. O., Overkamp T., Richter A., Richter A., Daniel P. T., Gillissen B. and Preissner R.
2D and 3D similarity landscape analysis identifies PARP as a novel off-target for the drug Vatalanib
BMC Bioinformatics 16: 308 (2015). IF: 2.58

Drwal M. N., Siramshetty V. B., Banerjee P., Goede A., Preissner R. and Dunkel M.
Molecular similarity-based predictions of the Tox21 screening outcome
Front. Environ. Sci. 3:54 (2015).

Preissner S., Simmaco M., Gentile G. and Preissner R.
Personalized Cancer Therapy Considering Cytochrome P450 Variability
Adv Pharmacol 74: 113-30 (2015).

Metushi I. G., Wriston A., Banerjee P.,Gohlke B. O.,English A. M., Lucas A., Moore C., Sidney J., Buus S., Ostrov D. A.,
Mallal S., Phillips E., Shabanowitz J., Hunt D. F., Preissner R. and Peters B.
Acyclovir Has Low but Detectable Influence on HLA-B*57:01 Specificity without Inducing Hypersensitivity.
PLoS ONE 10(5): e0124878 (2015). IF: 4.411

Banerjee P., Erehman J., Gohlke B. O., Wilhelm T., Preissner R. and Dunkel M.
Super Natural II: A database of natural products
Nucleic Acids Res. 2015 Jan;43(Database issue):D935-9. PMID: 25300487, IF: 8.81


Nickel J., Gohlke B. O., Erehman J., Banerjee P., Rong W. W., Goede A., Dunkel A. and Preissner R.
SuperPred: Update on drug classification and target prediction
Nucleic Acids Res. 2014 Jul;42(Web Server issue):W26-31. PMID: 24878925, IF: 8.026

Drwal M., Banerjee P., Dunkel M., Wettig M. and Preissner R.
ProTox: A web server for the in silico prediction of rodent oral toxicity
Nucleic Acids Res. 2014 Jul;42(Web Server issue):W53-8. PMID: 24838562, IF: 8.026

Oertelt-Prigione S., Gohlke B. O., Dunkel M., Preissner R. and Regitz-Zagrosek V.
GenderMedDB, an interactive database of sex and gender-specific medical literature
Biol Sex Differ. 2014 May 23;5:7. PMID: 24904731, IF: 3.237

Drwal M. N., Marinello J., Manzo S.G., Capranico G. and Griffith R.
Novel DNA topoisomerase II alpha inhibitors from combined ligand- and structure-based virtual screening
PLoS One. 2014 Dec 9;9(12):e114904. PMID: 25489853, IF: 3.2


Gohlke B. O., Preissner R. and Preissner S.
SuperPain - a resource on pain-relieving compounds targeting ion channels
Nucleic Acids Res. 2014 Jan;42(Database issue):D1107-12. PMID: 24271391, IF: 8.026

Hoffmann M. F., Preissner S. C., Nickel J., Dunkel M., Preissner R. and Preissner S.
The Transformer database: Biotransformation of xenobiotics
Nucleic Acids Res. 2014 Jan;42(Database issue):D1113-7. PMID: 24334957, IF: 8.026

Lemfack C.-M., Nickel J., Dunkel M., Preissner R. and Piechulla B.
mVOC: a database of microbial volatiles
Nucleic Acids Res. 2014 Jan;42(Database issue):D744-8. PMID: 24311565, IF: 8.026

Preissner S.C., Hoffmann M.F., Preissner R., Dunkel M., Gewiess A. and Preissner S.
Polymorphic Cytochrome P450 Enzymes (CYPs) and their role in Personalized Therapy
PLOS ONE 8(12):e82562 (2013) IF: 4.411

Hecker N., Stephan C., Mollenkopf H.J., Jung K., Preissner R. and Meyer H.A.
A new algorithm for integrated analysis of miRNA-mRNA interactions based on individual classification reveals insights into bladder cancer
PLOS ONE 8(5):e64543 (2013) IF: 4.411

Weidlich D., Wiesemann N., Heuveling J., Wardelmann K., Landmesser H., Sani K. B., Worth C., Preissner R. and Schneider E.
Residues of a proposed gate region in type I ATP-binding cassette import systems are crucial for function as revealed by mutational analysis
Biochim Biophys Acta. 1828(9): 2164-72 (2013) IF: 3.990

Von Eichborn J., Woelke A. L., Castiglione F. and Preissner R.
VaccImm: Simulating peptide vaccination in cancer therapy.
BMC Bioinformatics 14:127 (2013) IF: 3.02

Gillissen B., Richter A., Richter A., Overkamp T., Essmann F., Hemmati P. G., Preissner R., Belka C. and Daniel P. T.
Targeted therapy of the XIAP/proteasome pathway overcomes TRAIL-resistance in carcinoma .
Cell Death & Disease 4:e643 (2013) IF: 5.333

Holzhütter H. G., Lock J. F., Taheri P., Bulik S., Goede A., and Stockmann M.
Assessment of hepatic detoxification activity: proposal of an improved variant of the (13)c-methacetin breath test.
PLOS ONE 8(8):e70780 (2013) IF: 4.411

Hovestädt M., Kuckelkorn U., Niewienda A., Keller C., Goede A., Ay B., Günther S., Janek K., Volkmer R. and Holzhütter H. G.
Rapid degradation of solid-phase bound peptides by the 20S proteasome.
Journal of Peptide Science 19(9):588-97 (2013) IF: 2.071

Ismer J., Rose A. S., Tiemann J. K., Goede A., Rother K. and Hildebrand P. W.
Voronoia4RNA--a database of atomic packing densities of RNA structures and their complexes.
Nucleic Acids Res. 41(Database issue):D280-4 (2013) IF: 8.026

Drwal M.N., Agama K., Pommier Y. and Griffith R.
Development of purely structure-based pharmacophores for the topoisomerase I-DNA-ligand binding pocket
J Comput Aided Mol Des 27(12): 1037-49 (2013). IF: 3.0


Preissner S., Dunkel M., Hoffmann MF., Preissner SC., Genov N., Rong WW., Preissner R. and Seeger K.
Drug cocktail optimization in chemotherapy of cancer.
PLoS ONE. 7(12):e51020 (2012) IF: 4.411 [PDF]

Von Eichborn J., Dunkel M., Gohlke B. O., Preissner S. C., Hoffmann M. F., Bauer J. M. J., Armstrong J. D., Schaefer M. H., Andrade-Navarro M. A., Le Novere N., Croning M. D. R., Grant S. G. N., van Nierop P., Smit A. B., Preissner R.
SynSysNet: integration of experimental data on synaptic protein-protein interactions with drug-target relations.
Nucleic Acids Res. 41(Database issue): D834-40 IF: 8.026

Jäger I. S., Kretzschmar I., Körner J., Weiser A. A., Mahrenholz C. C., Potty A., Kourentzi K., Willson R. C., Volkmer R. and Preissner R.
Mapping discontinuous protein binding sites via structure-based peptide libraries: combining in silico and in vitro approaches.
Journal of Molecular Recognition 26:1 23–31 IF: 3.31

Adams R., Worth C. L., Lehmann R., Guenther S., Dunkel M. and Preissner R.
Binding sites in membrane proteins – diversity, druggability and prospects.
European Journal of Cell Biology 91: 326-339 (2012) IF: 3.630

Hecker N., Ahmed J., von Eichborn J., Dunkel M., Macha K., Eckert A., Gilson MK., Bourne PE., Preissner R.
SuperTarget goes quantitative: update on drug-target interactions.
Nucleic Acids Res. 40(Database issue): D1113-7 (2012) IF: 7.836 [PDF]

Mishto M., Goede A., Taube K. T., Keller C., Janek K., Henklein P., Niewienda A., Kloss A., Gohlke S., Dahlmann B., Enenkel C. and Kloetzel P. M.
Driving forces of proteasome-catalyzed peptide splicing in yeast and humans.
Mol Cell Proteomics 11(10): 1008-23 (2012) IF: 7.398


Meinel T. , Schweiger M.-R., Ludewig A. H., Chenna R., Krobitsch S. and Herwig R.
Ortho2ExpressMatrix--a web server that interprets cross-species gene expression data by gene family information
BMC Genomics 12:483. IF: 4.210 [PDF]

Woelke A. L., von Eichborn J., Murgueitio M., Worth C. L., Castiglione F. and Preissner R.
Development of Immune-Specific Interaction Potentials and Their Application in the Multi-Agent-System VaccImm.
PLoS ONE 6:e23257 (2011) IF: 4.411 [PDF]

Worth C. L., Preissner R. and Blundell T. L.
SDM--a server for predicting effects of mutations on protein stability and malfunction.
Nucleic Acids Res 39(Web Server issue): W215-22. (2011) IF: 7.836 [PDF]

von Eichborn J., Bourne P. E. and Preissner R.
Cobweb: a Java applet for network exploration and visualisation
Bioinformatics 27(12): 1725-6 (2011) IF: 4.926 [PDF]

Füllbeck M., Hossbach J., Jaeger I. S., Daniel P. T. and Preissner R.
In silico identification of small molecule mimetics of the pro-apoptotic BH3-peptide.
Letters in Drug Design & Discovery 8: 355-62. IF: 0.805

von Eichborn J., Murgueitio M. S., Dunkel M., Koerner S., Bourne P. E. and Preissner R.
PROMISCUOUS: A database for network-based drug-repositioning
Nucleic Acids Res 39(Database issue): D1060-6. (2011) IF: 7.836 [PDF]

Ahmed J., Worth C. L., Thaben P., Matzig C., Blasse C., Dunkel M. and Preissner R.
FragmentStore – a comprehensive database of fragments linking metabolites, toxic molecules and drugs.
Nucleic Acids Res 39(Database issue): D1049-54. IF: 7.836

Ahmed J., Meinel T., Dunkel M., Murgueitio M. S., Adams R., Blasse C., Eckert A., Preissner S. and Preissner R.
CancerResource – a comprehensive database of cancer-relevant proteins and compound interactions supported by experimental knowledge
Nucleic Acids Res 39(Database issue) :D960-7. IF: 7.836 [PDF]

Ahmed J., Preissner S., Dunkel M., Worth C. L., Eckert A. and Preissner R.
SuperSweet – a resource on natural and artificial sweetening agents.
Nucleic Acids Res 39(Database issue) :D377-82. IF: 7.836 [PDF]


Oertelt-Prigione S., Parol R., Krohn S., Preissner R. and Regitz-Zagrosek V.
Analysis of sex and gender-specific research reveals a common increase in publications and marked differences between disciplines
BMC Medicine 8: 70. (2010) IF: 3.99

Eschenburg G., Stermann A., Preissner R., Meyer H. A. and Lode H. N.
DNA Vaccination: Using the Patient's Immune System to Overcome Cancer
Clinical and Developmental Immunology (2010) IF: 3.0

Woelke A. L., Murgueitio M. S. and Preissner R.
Theoretical Modeling Techniques and Their Impact on Tumor Immunology
Clinical and Developmental Immunology (2010) IF: 3.0

Meinel T., Müller M.S., Ahmed J., Yildirimman R., Dunkel M., Herwig R. and Preissner R.
SOAP/WSDL-based Web Services for Biomedicine: Demonstrating the Technique with the CancerResource
In: Panagiotis D. Bamidis and Nicolas Pallikarakis (Eds.): XII Mediterranean Conference on Medical and Biological Engineering and Computing 2010 (IFMBE Proceedings), Chalkidiki, Greece. Berlin Heidelberg: Springer. 835-838.

Nitzsche B., Gloesenkamp C., Schrader M., Ocker M., Preissner R., Lein M., Zakrzewicz A., Hoffmann B. and Höpfner M.
Novel compounds with antiangiogenic and antiproliferative potency for growth control of testicular germ cell tumours.
British Journal of Cancer 103: 18-28 (2010) IF: 4.346

Gillissen B., Wendt J., Richter A., Richter A., Müer A., Overkamp T., Gebhardt N., Preissner R., Belka C., Dörken B. and Daniel P. T.
Endogenous Bak inhibitors Mcl-1 and Bcl-xL: differential impact on TRAIL resistance in Bax deficient carcinoma.
Journal of Cell Biology 188(6): 851-62. (2010) IF: 9.120

Preissner S., Kroll K., Dunkel M., Goldsobel G., Kuzman D., Senger S., Günther S., Winnenburg R., Schroeder M. and Preissner R.
SuperCYP: a comprehensive database on Cytochrome P450 enzymes including a tool for analysis of CYP-drug interactions.
Nucleic Acids Res 38(Database issue): D237-43. (2010) IF: 6.954 [PDF]

von Eichborn J., Günther S. and Preissner R.
Structural Features and Evolution of Protein-Protein Interactions.
Genome Inform 22: 1-10. (2010) [PDF]

Hippauf F., Michalsky E., Huang R., Preissner R., Barkman T.J. and Piechulla B.
Enzymatic, Expression and Structural Divergences among Carboxyl O-methyltransferases after gene duplication and speciation in Nicotiana.
Plant Mol Biol 72(3): 311. (2010) IF: 3.541


Füllbeck M., Gebhardt N., Hossbach J., Daniel P. T. and Preissner R.
Computer-assisted Identification of Small-Molecule Bcl-2 Modulators.
Computational Biology and Chemistry 33(6): 451-6 (2009) IF: 1.837

Füllbeck M., Dunkel M., Hossbach J., Daniel P. T. and Preissner R.
Cellular Fingerprints:A Novel Approach Using Large-Scale Cancer Cell Line Data for the Identification of Potential Anticancer Agents.
Chemical Biology & Drug Design 74(5): 439-48. (2009) IF: 2.375

Hossbach J., Michalsky E., Henklein P., Jaeger M., Daniel P. T. and Preissner R.
Inhibiting the inhibitors: Retro-inverso Smac peptides.
Peptides 30(12): 2374-9. (2009) IF: 2.565

Hildebrand P. W., Goede A., Bauer R. A., Gruening B., Ismer J., Michalsky E. and Preissner R.
SuperLooper--a prediction server for the modeling of loops in globular and membrane proteins.
Nucleic Acids Res 37(Web Server issue): W571-4. (2009) IF: 6.954

Bauer R., Rother K., Moor P., Reinert K., Steinke T., Bujnicki J. M. and Preissner R.
Fast Structural Alignment of Biomolecules Using a Hash Table, N-Grams and String Descriptors.
Algorithms 2: 692-709. (2009)

Fest S., Huebener N., Bleeke M., Durmus T., Stermann A., Woehler A., Baykan B., Zenclussen A. C., Michalsky E., Jaeger I. S., Preissner R., Hohn O., Weixler S., Gaedicke G. and Lode H. N.
Survivin minigene DNA vaccination is effective against neuroblastoma.
Int J Cancer 125(1): 104-14. (2009) IF: 4.555

Schmidt U., Struck S., Gruening B., Hossbach J., Jaeger I. S., Parol R., Lindequist U., Teuscher E. and Preissner R.
SuperToxic: a comprehensive database of toxic compounds.
Nucleic Acids Res 37(Database issue): D295-9. (2009) IF: 6.954 [PDF]

Rother K., Hildebrand P. W., Goede A., Gruening B. and Preissner R.
Voronoia: analyzing packing in protein structures.
Nucleic Acids Res 37(Database issue): D393-5. (2009) IF: 6.954 [PDF]

Dunkel M., Schmidt U., Struck S., Berger L., Gruening B., Hossbach J., Jaeger I. S., Effmert U., Piechulla B., Eriksson R., Knudsen J. and Preissner R.
SuperScent--a database of flavors and scents.
Nucleic Acids Res 37(Database issue): D291-4. (2009) IF: 6.954 [PDF]

Bauer R. A., Gunther S., Jansen D., Heeger C., Thaben P. F. and Preissner R.
SuperSite: dictionary of metabolite and drug binding sites in proteins.
Nucleic Acids Res 37(Database issue): D195-200. (2009) IF: 6.954 [PDF]

Gunther S., von Eichborn J., May P. and Preissner R.
JAIL: a structure-based interface library for macromolecules.
Nucleic Acids Res 37(Database issue): D338-41. (2009) IF: 6.954 [PDF]


Schmidt U., Ahmed J., Michalsky E., Hoepfner M. and Preissner R.
Comparative VEGF receptor tyrosine kinase modeling for the development of highly specific inhibitors of tumor angiogenesis.
Genome Inform 20: 243-251. (2008) [PDF]

Struck S., Schmidt U., Gruening B., Jaeger I. S., Hossbach J. and Preissner R.
Toxicity vs potency: Elucidation of toxicity properties discriminating between toxins, drugs, and natural compounds.
Genome Inform 20: 231-242. (2008) [PDF]

Kuhn M., Campillos M., Jensen L. J., Bork P., Gavin A. C., Luciani R., Fan H., Hossbach J., Hu J., Ahmed J. and Preissner R.
Patent: Aprepitant an antineoplastic drug.
U.S. patent application 61/043299. (2008)

Bauer R. A., Rother K., Bujncki J. M. and Preissner R.
Suffix techniques as a rapid method for RNA substructure search.
Genome Inform 20: 183-198. (2008) [PDF]

Ahmed J., Hossbach J., Wrede P. and Preissner R.
Development of specific gamma secretase inhibitors.
Handbook of Research on Systems Biology Applications in Medicine (ISBN: 978-1-60566-076-9): 423-437. (2008)

Hildebrand P. W., Gunther S., Goede A., Forrest L., Frommel C. and Preissner R.
Hydrogen-bonding and packing features of membrane proteins: functional implications.
Biophys J 94(6): 1945-53. (2008) IF: 4.757

Schwarzer R., Kaiser M., Acikgoez O., Heider U., Mathas S., Preissner R., Sezer O., Doerken B. and Jundt F.
Notch inhibition blocks multiple myeloma cell-induced osteoclast activation.
Leukemia 22(12): 2273-7. (2008) IF: 6.924

Dunkel M., Gunther S., Ahmed J., Wittig B. and Preissner R.
SuperPred: drug classification and target prediction.
Nucleic Acids Res 36(Web Server issue): W55-9. (2008) IF: 6.954 [PDF]

Bauer R. A., Bourne P. E., Formella A., Frommel C., Gille C., Goede A., Guerler A., Hoppe A., Knapp E. W., Poschel T., Wittig B., Ziegler V. and Preissner R.
Superimpose: a 3D structural superposition server.
Nucleic Acids Res 36(Web Server issue): W47-54. (2008) IF: 6.954 [PDF]

Preissner R., Dorken B., Jundt F., Ahmed J., Kunze R. and Froemmel C.
Patent: Novel gamma-secretase modulators.
Classification: - european: Application number: EP 08 010 126 4. (2008)

Huebener N., Fest S., Strandsby A., Michalsky E., Preissner R., Zeng Y., Gaedicke G. and Lode H. N.
A rationally designed tyrosine hydroxylase DNA vaccine induces specific antineuroblastoma immunity.
Mol Cancer Ther 7(7): 2241-51. (2008) IF: 5.137

Gunther S., Kuhn M., Dunkel M., Campillos M., Senger C., Petsalaki E., Ahmed J., Urdiales E. G., Gewiess A., Jensen L. J., Schneider R., Skoblo R., Russell R. B., Bourne P. E., Bork P. and Preissner R.
SuperTarget and Matador: resources for exploring drug-target relationships.
Nucleic Acids Res 36(Database issue): D919-22. (2008) IF: 6.954 [PDF]


Gunther S., Hempel D., Dunkel M., Rother K. and Preissner R.
SuperHapten: a comprehensive database for small immunogenic compounds.
Nucleic Acids Res 35(Database issue): D906-10. (2007) IF: 7.552 [PDF]

Gunther S., May P., Hoppe A., Frommel C. and Preissner R.
Docking without docking: ISEARCH--prediction of interactions using known interfaces.
Proteins 69(4): 839-44. (2007) IF: 3.73

Ahmed J., Gunther S., Moller F. and Preissner R.
A structural genomics approach to the regulation of apoptosis: chimp vs. human.
Genome Inform 18: 22-34. (2007) [PDF]

Günther S., Weiser A. A., Ahmed J. and Preissner R.
Superhaptens and their potential role in contact dermatitis.
Drug Discovery Today 4(1): 11-17. (2007) IF: 7.152 [PDF]

Gunther S., Neumann S., Ahmed J. and Preissner R.
Cellular Fingerprints: A Novel Concept for the Integration of Experimental Data and Compound-Target-Pathway Relations.
LNBI 4643: 167-70. (2007)


Opitz B., Vinzing M., van Laak V., Schmeck B., Heine G., Gunther S., Preissner R., Slevogt H., N'Guessan P. D., Eitel J., Goldmann T., Flieger A., Suttorp N. and Hippenstiel S.
Legionella pneumophila induces IFNbeta in lung epithelial cells via IPS-1 and IRF3, which also control bacterial replication.
J Biol Chem 281(47): 36173-9. (2006) IF: 5.581

Fest S., Huebener N., Weixler S., Bleeke M., Zeng Y., Strandsby A., Volkmer-Engert R., Landgraf C., Gaedicke G., Riemer A. B., Michalsky E., Jaeger I. S., Preissner R., Forster-Wald E., Jensen-Jarolim E. and Lode H. N.
Characterization of GD2 peptide mimotope DNA vaccines effective against spontaneous neuroblastoma metastases.
Cancer Res 66(21): 10567-75. (2006) IF: 7.616

Fullbeck M., Michalsky E., Dunkel M. and Preissner R.
Natural products: sources and databases.
Nat Prod Rep 23(3): 347-56. (2006) IF: 7.89

Hildebrand P. W., Lorenzen S., Goede A. and Preissner R.
Analysis and prediction of helix-helix interactions in membrane channels and transporters.
Proteins 64(1): 253-62. (2006) IF: 4.684

Herre S., Schadendorf T., Ivanov I., Herrberger C., Steinle W., Ruck-Braun K., Preissner R. and Kuhn H.
Photoactivation of an inhibitor of the 12/15-lipoxygenase pathway.
Chembiochem 7(7): 1089-95. (2006) IF: 3.94

Dunkel M., Fullbeck M., Neumann S. and Preissner R.
SuperNatural: a searchable database of available natural compounds.
Nucleic Acids Res 34(Database issue): D678-83. (2006) IF: 7.552 [PDF]

Gunther S., Rother K. and Frommel C.
Molecular flexibility in protein-DNA interactions.
Biosystems 85(2): 126-36. (2006) IF: 1.144

Fullbeck M., Michalsky E., Jaeger I. S., Henklein P., Kuhn H., Ruck-Braun K. and Preissner R.
Design and biological evaluation of photo-switchable inhibitors.
Genome Inform 17(1): 141-51. (2006) [PDF]

Rother K., Dunkel M., Michalsky E., Trissl S., Goede A., Leser U. and Preissner R.
A structural keystone for drug design.
Journal of Integrative Bioinformatics 3(1). (2006) [PDF]

Gunther S., Senger C., Michalsky E., Goede A. and Preissner R.
Representation of target-bound drugs by computed conformers: implications for conformational libraries.
BMC Bioinformatics 7: 293. (2006) IF: 5.423 [PDF]

Goede A., Michalsky E., Schmidt U. and Preissner R.
SuperMimic--fitting peptide mimetics into protein structures.
BMC Bioinformatics 7: 11. (2006) IF: 5.423 [PDF]


Rother K., Michalsky E. and Leser U.
How well are protein structures annotated in secondary databases?
Proteins 60(4): 571-6. (2005) IF: 4.313

Goede A., Dunkel M., Mester N., Frommel C. and Preissner R.
SuperDrug: a conformational drug database.
Bioinformatics 21(9): 1751-3. (2005) IF: 6.701 [PDF]

Lorenzen S., Dunkel M. and Preissner R.
In silico screening of drug databases for TSE inhibitors.
Biosystems 80(2): 117-22. (2005) IF: 1.144

Hildebrand P. W., Rother K., Goede A., Preissner R. and Frommel C.
Molecular packing and packing defects in helical membrane proteins.
Biophys J 88(3): 1970-7. (2005) IF: 4.463

Lorenzen S., Peters B., Goede A., Preissner R. and Frommel C.
Conservation of cis prolyl bonds in proteins during evolution.
Proteins 58(3): 589-95. (2005) IF: 4.313

Fuellbeck M., Preissner R., Dubiel W. and Froemmel C.
Patent: Neues Mittel zur Tumorsuppression und Hemmung der Tumorangiogenese.
Patent number: DE102004063269.3 Publication Date: 2005-06-29; Classification: -international: A61K31/122; A61P35/00; C07C50/34. (2005)

Fullbeck M., Huang X., Dumdey R., Frommel C., Dubiel W. and Preissner R.
Novel curcumin- and emodin-related compounds identified by in silico 2D/3D conformer screening induce apoptosis in tumor cells.
BMC Cancer 5: 97. (2005) IF: 2.293 [PDF]

Goede A., Jaeger I. S. and Preissner R.
SUPERFICIAL--surface mapping of proteins via structure-based peptide library design.
BMC Bioinformatics 6: 223. (2005) IF: 5.423 [PDF]

Michalsky E., Dunkel M., Goede A. and Preissner R.
SuperLigands - a database of ligand structures derived from the Protein Data Bank.
BMC Bioinformatics 6: 122. (2005) IF: 5.423 [PDF]

Jundt F., Acikgoz O., Preissner R., Esselmann H., Anagnostopoulos I., Stein H. and Dorken B.
Newly identified G-secretase inhibitors block Notch signaling and control multiple myeloma cell profliferation.
Ann Oncol 16(35). (2005) IF: 4.335

Trissl S., Rother K., Muller H., Steinke T., Koch I., Preissner R., Frommel C. and Leser U.
Columba: an integrated database of proteins, structures, and annotations.
BMC Bioinformatics 6: 81. (2005) IF: 5.423 [PDF]


Thimm M., Goede A., Hougardy S. and Preissner R.
Comparison of 2D similarity and 3D superposition. Application to searching a conformational drug database.
J Chem Inf Comput Sci 44(5): 1816-22. (2004) IF: 3.078

Goede A., Dubiel W., Froemmel C. and Preissner R.
Patent: Signalosom als Zielkomplex zur Hemmung von Tumorzellen und Angiogenese.
Classification: - international: A61K31/05; A61K31/12 - european: Application number: DE20021090562 20020221. (2004)

Hildebrand P. W., Preissner R. and Frommel C.
Structural features of transmembrane helices.
FEBS Lett 559(1-3): 145-51. (2004) IF: 3.609

Jundt F., Acikgoez O., Preissner R. and Dorken B.
Manipulation of the notch pathway by gamma-secretase inhibitors as a novel therapeutic approach in multiple myeloma.
Blood 104: 186. (2004) IF: 9.782


Rother K., Preissner R., Goede A. and Frommel C.
Inhomogeneous molecular density: reference packing densities and distribution of cavities within proteins.
Bioinformatics 19(16): 2112-21. (2003) IF: 6.701

Gille C., Goede A., Schloetelburg C., Preissner R., Kloetzel P. M., Gobel U. B. and Frommel C.
A comprehensive view on proteasomal sequences: implications for the evolution of the proteasome.
J Mol Biol 326(5): 1437-48. (2003) IF: 5.239

Lorenzen S., Gille C., Preissner R. and Frommel C.
Inverse sequence similarity of proteins does not imply structural similarity.
FEBS Lett 545(2-3): 105-9. (2003) IF: 3.609

Frommel C., Gille C., Goede A., Gropl C., Hougardy S., Nierhoff T., Preissner R. and Thimm M.
Accelerating screening of 3D protein data with a graph theoretical approach.
Bioinformatics 19(18): 2442-7. (2003) IF: 6.701

Gille C., Lorenzen S., Michalsky E. and Frommel C.
KISS for STRAP: user extensions for a protein alignment editor.
Bioinformatics 19(18): 2489-91. (2003) IF: 6.701

Michalsky E., Goede A. and Preissner R.
Loops In Proteins (LIP)--a comprehensive loop database for homology modelling.
Protein Eng 16(12): 979-85. (2003) IF: 2.065

2002 and earlier

Huang X., Seifert U., Salzmann U., Henklein P., Preissner R., Henke W., Sijts A. J., Kloetzel P. M. and Dubiel W.
The RTP site shared by the HIV-1 Tat protein and the 11S regulator subunit alpha is crucial for their effects on proteasome function including antigen processing.
J Mol Biol 323(4): 771-82. (2002) IF: 5.239

Goede A., Dubiel W., Froemmel C. and Preissner R.
Patent: Agent for inhibiting tumor cells.
International: A61K31/165; A61P35/00 - european: A61K31/05, A61K31/121, A61K31/122, A61K31/167 Application number: WO2002DE00653 20020221. (2002)

Froemmel C., Goede A. and Preissner R.
Patent: Determination of ligands for proteins.
Classification: - international: G01N33/53; G01N33/542; G01N21/00; C12Q1/00 - european: C07K1/22, G01N33/53 Application number: US20010772538 20010129. (2002)

Preissner R., Goede A., Rother K., Osterkamp F., Koert U. and Froemmel C.
Matching organic libraries with protein-substructures.
J Comput Aided Mol Des 15(9): 811-7. (2001) IF: 3.194

Gille C., Goede A., Preissner R., Rother K. and Frommel C.
Conservation of substructures in proteins: interfaces of secondary structural elements in proteasomal subunits.
J Mol Biol 299(4): 1147-54. (2000) IF: 5.239

Preissner R., Goede A. and Frommel C.
Homonyms and synonyms in the Dictionary of Interfaces in Proteins (DIP).
Bioinformatics 15(10): 832-6. (1999) IF: 6.701

Preissner R., Goede A. and Frommel C.
Spare parts for helix-helix interaction.
Protein Eng 12(10): 825-32. (1999) IF: 3.209

Schmidt M., Zantopf D., Kraft R., Kostka S., Preissner R. and Kloetzel P. M.
Sequence information within proteasomal prosequences mediates efficient integration of beta-subunits into the 20 S proteasome complex.
J Mol Biol 288(1): 117-28. (1999) IF: 5.239

Preissner R., Goede A. and Frommel C.
Dictionary of interfaces in proteins (DIP). Data bank of complementary molecular surface patches.
J Mol Biol 280(3): 535-50. (1998) IF: 6.701

Preissner R., Goede A., Michalski E. and Frommel C.
Inverse sequence similarity in proteins and its relation to the three-dimensional fold.
FEBS Lett 414(2): 425-9. (1997) IF: 3.609

Goede A., Preissner R. and Frömmel C.
Voronoi cell: : New method for allocation of space among atoms: Elimination of avoidable errors in calculation of atomic volume and density.
J Comp Chem 18(9): 1113-23. (1996) IF: 3.186

Preissner R. and Bork P.
On alpha-helices terminated by glycine. 1. Identification of common structural features.
Biochem Biophys Res Commun 180(2): 660-5. (1991) IF: 2.836

Bork P. and Preissner R.
On alpha-helices terminated by glycine. 2. Recognition by sequence patterns.
Biochem Biophys Res Commun 180(2): 666-72. (1991) IF: 2.836

Preissner R., Egner U. and Saenger W.
Occurrence of bifurcated three-center hydrogen bonds in proteins.
FEBS Lett 288(1-2): 192-6. (1991) IF: 3.609

Frommel C. and Preissner R.
Prediction of prolyl residues in cis-conformation in protein structures on the basis of the amino acid sequence.
FEBS Lett 277(1-2): 159-63. (1990) IF: 3.609