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19. A systems-biology analysis of isogenic megakaryocytic and granulocytic cultures identifies new molecular components of megakaryocytic apoptosis. C. Chen, P. G. Fuhrken, L. T. Huang, C. J. Paredes, W. M. Miller, and E. T. Papoutsakis. BMC Genomics, 2007 8; 384.
18. Analysis of the clostridial hydrophobic with a conserved tryptophan family (ChW) of proteins in Clostridium acetobutylicum with emphasis on ChW14 and ChW16/17. L. Sullivan, C. J. Paredes, E. T. Papoutsakis, and G. N. Bennett. Enzyme and Microbial Technology, 2007, 42; 29-43.
17. Molecular aspects of butanol fermentation C. J. Paredes , S. W. Jones, R. S. Senger, J. R. Borden, R Sillers and E. T. Papoutsakis. Bioenergy: Microbial Contributions to Alternative Fuels. J. D. Wall C. S. Harwood and A. Demain (eds.) American Society for Microbiology Press (to appear)
16. Gene-expression analysis illuminates the transcriptional programs underlying the functional activity of ex-vivo-expanded granulocytes. L.-T. Huang, C. J. Paredes, E. T. Papoutsakis, and W. M. Miller. Physiological Genomics, 2007,31; 114-125
15. A general framework for designing and validating oligomer-based DNA microarrays and its application to Clostridium acetobutylicum. C. J. Paredes, R. Sillers, J. R. Borden and E. T. Papoutsakis. Applied and Environmental Microbiology, 2007,73 (14); 4631-4638.
14. A model-based optimization framework for the inference of regulatory interactions using time-course DNA microarray expression data. R. Thomas, C. J Paredes, S. Mehrotra, E. T. Papoutsakis and V. Hatzimanikatis. BMC Bioinformatics, 2007, 8; 228.
13. A comparative genomic view of clostridial sporulation and physiology. C. J. Paredes, K. V. Alsaker, and E. T. Papoutsakis. Nature Microbiology Reviews, 2005, 3 (12); 969-978.
12. Diffusion, Mixing, and Associated Dye Effects in DNA-Microarray Hybridizations. J. R. Borden, C. J. Paredes, and E. T. Papoutsakis. Biophysical Journal, 2005, 89 (5); 3277-3284.
11. Design, Optimization and Validation of Genomic DNA Microarrays for Examining the Clostridium acetobutylicum Transcriptome. K. V. Alsaker, C. J. Paredes, and E. T. Papoutsakis. Biotechnology and Bioprocess Engineering, 2005, 10; 432-443.
10. Molecular insights into the pleiotropic effects of plasma on ex vivo expanded T cells using DNA-microarray and protein-level analysis. C. G. Ramsborg, D. Windgassen, C. J. Paredes, and E. T. Papoutsakis. Experimental Hematology, 2004, 32; 970-990.
09. Strategies for fed-batch cultivation of t-PA producing CHO cells: substitution of glucose and glutamine and rational design of culture medium. C. Altamirano, C. Paredes, A. Illanes, J.J. Cairó, and F. Gòdia. Journal of Biotechnology, 2004, 110 (2); 171-179.
08. Molecular understanding of oxygen-tension and patient-variability effects on ex vivo expanded T cells. H. Haddad, D. Windgassen, C. G. Ramsborg, C. J. Paredes, and E. T. Papoutsakis. Biotechnology and Bioengineering, 2004, 87 (4); 437-450.
07. Transcriptional Organization Of The Clostridium acetobutylicum Genome. C. J. Paredes, I. Rigoutsos, and E. T. Papoutsakis. Nucleic Acids Research, 2004, 32 (6); 1973-1981.
06. Transcriptional analysis of product-concentration driven changes in cellular programs of recombinant Clostridium acetobutylicum strains. S. B. Tummala, S. G. Junne, C. J. Paredes, and E. T. Papoutsakis. Biotechnology and Bioengineering. 2003, 84 (7); 842-854.
05. DNA Array-Based Transcriptional Analysis of Asporogenous, Nonsolventogenic Clostridium acetobutylicum Strains SKO1 and M5. C. A. Tomas, K. V. Alsaker, H. P. J. Bonarius, W. T. Hendriksen, H. Yang, J. A. Beamish, C. J. Paredes, and E. T. Papoutsakis. Journal of Bacteriology. 2003, 185 (15); 4539-4547.
04. Improvement of CHO Cell Culture Medium Formulation: Simultaneous Substitution of Glucose and Glutamine. C. Altamirano, C. Paredes, J.J. Cairó, and F. Gòdia. Biotechnology Progress. 2000, 16 (1); 69-75.
03. Modification of Glucose and Glutamine Metabolism in Hybridoma Cells through metabolic engineering. C. Paredes, E. Prats, J.J. Cairó, F. Azorin, Ll. Cornudella and F. Gòdia. Cytotechnology. 1999, 30; 85-93.
02. Estimation of the Intracellular Fluxes for a Hybridoma Cell Line by Material Balances. C. Paredes, A. Sanfeliu, F. Cárdenas, J.J. Cairó and F. Gòdia. Enzyme and Microbial Technology. 1998, 23; 187-198.
01. Identification of Key Patterns in the Metabolism of Hybridoma Cells in Culture. A. Sanfeliu, C. Paredes, J.J. Cairó and F. Gòdia. Enzyme and Microbial Technology. 1997, 21; 421-428.