Publications

Due to collaborations with research institutions, BioControl is involved in a number of publications. Contact us to receive full papers.

List of Publications

  1. P. Angelov, R. Guthke, and R. Berkholz, "Optimal control of a fermentation process using neural networks and genetic algorithms," in 6th European Congress on Intelligent Techniques & Soft Computing Aachen, Germany, September 7 - 10, 1998 - Proceedings (H.-J. Zimmermann, ed.), (Aachen), pp. 1591-1595, Verlag Mainz, 1998.
  2. R. Berkholz, R. Guthke, and W. Schmidt-Heck, "Sequentielle Versuchsplanung zur Optimierung von Bioprozessen mit Produktbildung im Uebergangszustand," in DECHEMA/GVC-Tagung 'Wechselwirkung zwischen Biologie und Prozessfuehrung', Erfurt, 10.-11.Mai 1999.
  3. R. Berkholz, D. Roehlig, and R. Guthke, "Data and knowledge based experimental design for fermentation process optimization," Enzyme and Microbial Technology, vol. 27, pp. 784-788, 2000.
  4. R. Berkholz, R. Guthke, W. Schmidt-Heck, and D. Roehlig, "Experimental design for bioprocess optimization: Numerical and experimental results." Poster VII.82, 11th Int. Biotechnology Symp. Berlin September 3 - 8, 2000.
  5. R. Berkholz and R. Guthke, "Model based sequential experimental design for bioprocess optimisation - an overview," in Focus in Biotechnology, Vol. IV (M. Hofmann and P. Thonart, eds.), pp. 129-141, Kluwer Academic Publishers, 2001.
  6. R. Berkholz, M. Pfaff, and R. Guthke, "Experimental Design for Bioprocess Optimization using Deterministic and Hybrid Models," Biotech Journal International, Globetech Publications, Wilton, USA, 2001.
  7. R. Berkholz, R. Guthke, W. Schmidt-Heck, and D. Roehlig, "Experimental Design for Bioprocess Optimization: Numerical and Experimental Results," in 11th International Biotechnology Symposium, 3 - 8 September 2000 Berlin, Germany.
  8. A. Busch, S. Michel, C. Hoppe, D. Driesch, U. Claussen and F. von Eggeling, "Proteome Analysis of Maternal Serum Samples for Trisomy 21 Pregnancies using ProteinChip Arrays and Bioinformatics", Journal of Histochemistry & Cytochemistry, Vol. 53(3), 2005, ISSN 0022-1554, pp. 341-343.
  9. D. Driesch, M. Pfaff, and R. Guthke, "Data Mining to Investigate Relations Between Seed and Main Culture Performance," in 7th European Congress on Intelligent Techniques & Soft Computing Aachen, Germany, September 13 - 16, 1999 - Abstracts of the Papers & Proceedings on CD-ROM (H.-J. Zimmermann, ed.), (Aachen), p. 234, Verlag Mainz, 1999.
  10. D. Driesch, D. Woetzel, R. Guthke, M. Pfaff, "Fuzzy Cluster and Fuzzy Rule Cancer Status Prediction Based on Gene Expression Data", BSI 2002 4th International Workshop on Biosignal Interpretation, June 24-26, 2002, Como, Italy. Abstract, Paper and Talk. Session S1 on Data Processing in Genomics and Proteomics. Proceedings (Eds.: S. Cerutti, M. Akay, L.T. Mainardi, S. Sato and C. Zywietz), Published by the Department of Biomedical Engineering, Polytechnic University of Milan, Italy. Talk: Schedule: p. iii; Abstract and Paper: pp. 7-10.
  11. B. Fahnert, D. Hahn, and R. Guthke, "Knowledge-Based Assessment of Gene Expression Data from Chemiluminescence Detection," J. Biotechnology, 2001.
  12. R. Guthke, W. Schmidt-Heck, and F. Meyer, "Data Analysis and Knowledge Acquisition in Biotechnology." 1st Int. Data Analysis Symposium, Aachen, September 12, 1997 Invited Paper.
  13. R. Guthke, W. Schmidt-Heck, and M. Pfaff, "Knowledge acquisition and knowledge based control of fermentations." Invited paper to the 8th Europ. Congress on Biotechnology, Budapest / Hungary, August 17 - 21, 1997.
  14. R. Guthke, M. Pfaff, and F. Meyer, "Optimized Fuzzy Rule Generation for Fermentation Control," in 7th International Conference on Computer Applications in Biotechnology CAB7, May 31 - June 4, 1998, Osaka, Japan (T. Yoshida and S. Shioya, eds.), pp. 303-308, 1998.
  15. R. Guthke, W. Schmidt-Heck, and M. Pfaff, "Knowledge Acquisition and Knowledge Based Bioprocess Control," Journal of Biotechnology, vol. 65, pp. 37-46, 1998.
  16. R. Guthke, W. Schmidt-Heck, P. Mueller, H. Rodig, and R. Berkholz, "Data and Knowledge Based Experimental Design for Bioprocess Optimization," in Proceedings of the German Conference on Bioinformatics - GCB'99, October 4 - 6, 1999, Hannover, Germany, pp. 199-200, 1999.
  17. R. Guthke, V. Schroeckh, R. Berkholz, and M. Pfaff, "Data Mining and Model based Experimental Design of Fed Batch Fermentations for Bioprocess Optimization and Functional Genomics." Invited Lecture, Conference on Datamining in Bioinformatics, EMBL-European Bioinformatics Institute, Hinxton, Cambridge, UK, November 10 - 12, 1999.
  18. R. Guthke, V. Schroeckh, R. Berkholz, and M. Pfaff, "Data Mining and Model based Experimental Design of Fed Batch Fermentations for Bioprocess Optimization and Functional Genomics." Poster, Workshop "Funktionelle Genomforschung an Mikroorganismen", Dechema-Haus, Frankfurt/Main, November 4 - 5, 1999.
  19. R. Guthke, W. Schmidt-Heck, P. Mueller, H. Rodig, and R. Berkholz, "Data and Knowledge Based Experimental Design for Bioprocess Optimization." 9th Europ. Congress on Biotechnol., Brussels, Belgium, July 11 - 15, 1999.
  20. R. Guthke, P. Mueller, H. Rodig, S. Lau, and D. Driesch, "Data Mining for Bioprocess Optimization: Applications of Wavelet Analysis and Decision Trees," in 3rd International Data Analysis Symposium, September 13 - 17, 1999, Aachen, Germany, 1999.
  21. R. Guthke, W. Schmidt-Heck. P. Mueller, H. Rodig, and R. Berkholz, "Data and Knowledge Based Experimental Design for Bioprocess Optimization," in 9th European Congress on Biotechnology, 11 - 15 July 1999 Brussels, Belgium, 1999.
  22. R. Guthke, W. Schmidt-Heck, and M. Pfaff, "Gene Expression Data Analysis Methods for Functional Genomcis," in ESIT 2000 - European Symposium on Intelligent Techniques, 14 - 15 September 2000 Aachen, Germany.
  23. R. Guthke, D. Hahn, B. Fahnert, T. Kroll, and S. Woelfl, "Gene Expression Data Mining by Fuzzy-C-Means Clustering and Fuzzy Rule Generation." Lecture 11th Int. Biotechnology Symp. Berlin September 3 - 8, 2000.
  24. R. Guthke, B. Fahnert, D. Hahn, and R. Berkholz, "E.coli Gene Expression Data Mining using Fuzzy Technologies for Functional Genomics." German Conference in Bioinformatics - GCB00, Heidelberg, October 5 - 7, 2000.
  25. R. Guthke, "Gene Expression Data Mining by Fuzzy-C-Means Clustering and Fuzzy Rule Extraction." Invited Paper, Drug Discovery Technology 2001 Congress, Stuttgart, April 24 - 26, 2001.
  26. R. Guthke, W. Schmidt-Heck, D. Hahn, and M. Pfaff, "Gene expression data mining for functional genomics using fuzzy technology," in International Series in Intelligent Technologies: Advances in Computational Intelligence and Learning: Methods and Applications (H.-J. Zimmerman, G. Tselentis, M. van Someren, and G. Dounias, eds.), Kluwer Academic Publishers, 2001.
  27. R. Guthke, W. Schmidt-Heck, and R. Berkholz, "Data mining based hybrid modelling and experimental design for bioprocess optimisation," in Proc. 2nd Conf. of the European Society for Fuzzy Logic and Technology - EUSFLAT 2001, Leicester, England, September 5 - 7, 2001, pp. 301-304, 2001.
  28. R. Guthke, W. Schmidt-Heck, D. Hahn, and M. Pfaff, "Gene expression Data Mining for Functional Genomics," in Proc. 8th Internatioal Conf. on Computer Appl. in Biotechnol., CAB8, Quebec City, Canada, 24 - 27 June 2001 (D. Dochain and M. Perrier, eds.), pp. 73-78, IFAC and EFB, 2001.
  29. R. Guthke, W. Schmidt-Heck, D. Hahn and M. Pfaff, "Gene Expression Data Mining for Functional Genomics using Fuzzy Technology", Book Contribution. In: H.-J. Zimmermann, G. Tselentis, M. van Someren, G. Dounias (Eds.): International Series in Intelligent Technologies: Advances in Computational Intelligence and Learning: Methods and Applications. Kluwer Academic Publishers, 2002, ISBN 0-7923-7645-5, pp. 475-487.
  30. R. Guthke, W. Schmidt-Heck, and R. Berkholz, "Gene Expression Based Adaptive Fuzzy Control of Bioprocesses - State of the Art and Prospects," in Proc. Europ. Symp. on Intelligent Technologies, Hybrid Systems and their implementation on Smart Adaptive Systems. 13 - 15 December 2001, Tenerife, Spain, 2001.
  31. R. Guthke, U. Moeller, M. Hoffmann, F. Thies and S. Toepfer, "Dynamic Network Reconstruction from Gene Expression Data Applied to Immune Response during Bacterial Infection", Bioinformatics, Vol. 21, No. 8, 2005, ISSN 1367-4803, pp. 1626-1634.
  32. R. Guthke, W. Schmidt-Heck, M. Pfaff, S. Toepfer, D. Driesch, K. Iding, H. Buentemeyer, J. Lehmann, K. Zeilinger, G. Pless, P. Neuhaus and J. Gerlach, "Network Based Analysis of the System Dynamics of a Bioartificial 3D Human Liver Cell Bioreactor for Extracorporeal Liver Support", 2nd World Congress on Regenerative Medicine, May 18-20, 2005, Leipzig, Germany. Abstract and Poster P44. The International Journal of Artificial Organs, Vol. 28, No. 4, 2005, ISSN 0391-3988, pp. 379-378.
  33. R. Guthke, W. Schmidt-Heck, M. Pfaff, S. Toepfer, D. Driesch, K. Zeilinger, G. Pless, K. Iding, H. Buentemeyer, J. Lehmann, P. Neuhaus and J.C. Gerlach, "Kinetic Characterization of Amino Acid Metabolism in a 3D Liver Cell Bioreactor" (in German), GASL 2005, 21st Annual Meeting of the German Association for the Study of the Liver, Session on Metabolism/Transport/Tumours, January 28-29, 2005, Ulm, Germany. Abstract and Poster 2.22. Zeitschrift fuer Gastroenterologie/German Journal of Gastroenterology, Vol. 43, 2005, ISSN 0044-2771, p. 76.
  34. D. Hahn, B. Fahnert, and R. Guthke, "Datenverarbeitung von "panorama e.coli gene arrays": Hintergrunderfassung, Normalisierung, Visualisierung der Ergebnisdaten." Poster, Statusseminar Chiptechnologien: Vom Genom zum Proteom, Frankfurt am Main, January 22 - 23, 2001.
  35. T. Kroll, D. Hahn, R. Guthke, and S. Woelfl, "Comparison of methods for background correction and standardisation." Poster, 3rd Int. Meeting on Microarray Data Standards, Annotations, Ontologies and Databases, Stanford University, Palo Alto, USA, March 28 - 31, 2001.
  36. K. Junker, J. Gneist, C. Melle, D. Driesch, J. Schubert, U. Claussen and F. von Eggeling, "Identification of Protein Pattern in Kidney Cancer using ProteinChip® Arrays and Bioinformatics", International Journal of Molecular Medicine, Vol. 15, 2005, ISSN 1107-3756, pp. 285-290.
  37. C. Melle, R. Kaufmann, M. Hommann, A. Bleul, D. Driesch, G. Ernst and F. von Eggeling, "Proteomic Profiling in Microdissected Hepatocellular Carcinoma Tissue using ProteinChip® Technology", International Journal of Oncology 24, 2004, ISSN 1019-6439, pp. 885-891.
  38. F. Meyer, Computerintegrierte Bioverfahrensentwicklung am Beispiel der dynamischen Mikrofiltration. Dissertation, Gesamthochschule Essen, 1997.
  39. F. Meyer, R. Guthke, and W. Knorre, "Modellierung waehrend der Bioverfahrensentwicklung - ein kritischer Vergleich unterschiedlicher Modellierungstechniken." Poster, GVC/VDI-Tagung "Verfahrenstechnische Grundlagen und Modellierung von Bioprozessen" Goslar, May 5 - 6, 1997.
  40. V. Monossov, M. Pfaff and R. Guthke, "Extraction and Validation of Rule Based Knowledge from Gene Expression Data", GCB03 German Conference on Bioinformatics, October 12-14, 2003, Munich, Germany. Abstract and Poster. Proceedings - Volume II: Posters (Eds.: H.-W. Mewes, V. Heun, D. Frishman, S. Kramer) pp. 137-139.
  41. J. Mueller, F. von Eggeling, D. Driesch, J. Schubert, C. Melle and K. Junker, "ProteinChip Technology Reveals Distinctive Protein Expression Profiles in the Urine of Bladder Cancer Patients", European Urology, Vol. 47, 2005, ISSN 0302-2838, pp. 885-894.
  42. M. Pfaff and R. Guthke, "Intelligent methods for bioprocess analysis and control." Poster, 13th Meeting der Society for General Microbiology, Univ. of Reading/ England, 7-9 Jan. 1997.
  43. M. Pfaff, W. Schmidt-Heck, F. Meyer, and R. Guthke, "Bioprocess data analysis applied to wastewater treatment." Poster, 13th Meeting der Society for General Microbiology, Univ. of Reading / England, January 7 - 9, 1997.
  44. M. Pfaff and D. Driesch, "Bioactivity Pattern Recognition," in 6th European Congress on Intelligent Techniques & Soft Computing Aachen, Germany, September 7 - 10, 1998 - Proceedings (H.-J. Zimmermann, ed.), vol. 3, (Aachen), pp. 1574-1579, Verlag Mainz, 1998.
  45. M. Pfaff, R. Guthke, R. Pohlmeier, K. Schroeder, G. Stein, and J. Vienken, "Using Data Mining Methods to Assess Factors Associated with Dialysis Outcome," Journal of the American Society of Nephrology, vol. 10, p. 253A, 1999. A1281.
  46. M. Pfaff, K. Schroeder, D. Woetzel, K. Weller, R. Guthke, R. Pohlmeier, J. Vienken, and G. Stein, "Dialysis Data Mining to Examine Relations between Therapy and Outcome." Conf. of The American Society of Nephrology, 2000.
  47. M. Pfaff, D. Woetzel, K. Weller, K. Schroeder, R. Pohlmeier, J. Vienken, G. Stein, and R. Guthke, "Cluster and Rule Based Prediction in Hemodialysis: Adaptivity vs Robustness," in Proc. Europ. Symp. on Intelligent Technologies, Hybrid Systems and their implementation on Smart Adaptive Systems. 13 - 15 December 2001, Tenerife, Spain, 2001.
  48. M. Pfaff, R. Guthke, D. Woetzel and D. Driesch, "Gene Expression Based Cancer Status Prediction for Individual Patients by an Optimized Cluster and Rule Based System", In: G.D. Dounias, A.V. Roudsari (Eds.): Intelligent E-Health Applications in Medicine and Other Medical Applications of Adaptive / Hybrid Intelligent Systems. Special Session Proceedings of the EUNITE 2002 Symposium, September 19-21, 2002, Albufeira, Portugal, Organized by IBA D: Human, Medical & Health Care, Published by the University of the Aegean, Greece, in Collaboration with EUNITE, The European Network on Intelligent Technologies for Smart Adaptive Systems, 2002, pp. 104-122.
  49. M. Pfaff, K. Weller, D. Woetzel, R. Guthke, K. Schroeder, G. Stein, R. Pohlmeier and J. Vienken, "Prediction of Cardiovascular Risk in Hemodialysis Patients by Data Mining", BSI 2002 4th International Workshop on Biosignal Interpretation, June 24-26, 2002, Como, Italy. Abstract, Paper and Poster. Poster Session P2. Proceedings (Eds.: S. Cerutti, M. Akay, L.T. Mainardi, S. Sato and C. Zywietz), Published by the Department of Biomedical Engineering, Polytechnic University of Milan, Italy. Poster: Schedule: p. x; Abstract and Paper: pp. 445-450.
  50. M. Pfaff, K. Weller, D. Woetzel, R. Guthke, K. Schroeder, G. Stein, R. Pohlmeier and J. Vienken, "Prediction of Cardiovaskular Risk in Hemodialysis Patients by Data Mining", Special Topic: 4th BioSignal Interpretation (BSI) Workshop 2002 (Eds.: S. Cerutti, D. Hudson, C. Zywietz), Methods of Information in Medicine 43, 2004, ISSN 0026-1270, pp. 106-113.
  51. M. Pfaff, D. Woetzel, K. Weller, R. Guthke, J. Vienken and G. Stein, "Predictive Data Mining in Hemodialysis by Cluster and Rule Based Methods", BMT 2004 Biomedizinische Technik, 38th Annual Meeting of the German Society for Biomedical Engineering, Session on Computer Aided Diagnosis, September 22-24, 2004, TU Ilmenau, Germany. Abstract, Paper and Talk. Talk: Schedule: Programme p. 72; Abstract and Paper in: U. Boenick, A. Bolz (Eds.): Biomedizinische Technik/Biomedical Engineering, Vol. 49, Suppl. Vol. 2, Part 1, 2004, ISSN 0939-4990, pp. 478-479.
  52. W. Schmidt-Heck, K. Zeilinger, M. Pfaff, S. Toepfer, D. Driesch, G. Pless, P. Neuhaus, J.C. Gerlach and R. Guthke, "Network Analysis of the Kinetics of Amino Acid Metabolism in a Liver Cell Bioreactor", ISBMDA 2004, 5th International Symposium on Biological and Medical Data Analysis, Session on Bioinformatics, November 18-19, 2004, Barcelona, Spain. Abstract, Paper and Talk. Proceedings (Eds.: J.M. Barreiro, F. Martin-Sanchez, V. Maojo, F. Sanz) in Lecture Notes in Computer Science 3337, 2004, ISBN 3-540-23946-2, pp. 427-438.
  53. S. Toepfer, D. Driesch, D. Woetzel, M. Pfaff and R. Guthke, "Reconstruction of Gene Regulatory Networks: A Novel Structure Optimization Method for Dynamic Models", GCB03 German Conference on Bioinformatics, October 12-14, 2003, Munich, Germany. Abstract and Poster P144. Proceedings - Volume II: Posters (Eds.: H.-W. Mewes, V. Heun, D. Frish-man, S. Kramer) p. 222.
  54. D. Woetzel, M. Pfaff, K. Weller, K. Schroeder, R. Pohlmeier, J. Vienken, G. Stein, and R. Guthke, "Data Mining & Prediction Tools to Support Patient Care in Hemodialysis," in Intelligent Systems in Patient Care (K. Adlassnig, ed.), (Wien), pp. 163-165, Oesterreichische Computer Gesellschaft, 2001.
  55. K. Zeilinger, M. Pfaff, R. Guthke, W. Schmidt-Heck, S. Toepfer, D. Woetzel, D. Driesch, G. Pless, P. Neuhaus and J.C. Gerlach, "Prediction of Metabolic Functions of Primary Human Liver Cells Maintained in Perfused 3D Multi-Compartment Bioreactors for Extracorporeal Liver Support", GASL 2005, 21st Annual Meeting of the German Association for the Study of the Liver, Session on Transplantation / Liver Surgery, January 28-29, 2005, Ulm, Germany. Abstract and Poster 3.41. Zeitschrift fuer Gastroenterologie/German Journal of Gastroenterology, Vol. 43, 2005, ISSN 0044-2771, p. 99.