Publications

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Pronk JT, Lee S Y, Lievense J, Pierce J, Palsson B, Uhlen M, Nielsen J.  2015.  How to set up collaborations between academia and industrial biotech companies.. Nat Biotechnol. 33(3):237-40.
Price ND, Reed JL, Palsson BØ.  2004.  Genome-scale models of microbial cells: evaluating the consequences of constraints.. Nature reviews. Microbiology. 2(11):886-97.
Price ND, Papin JA, Schilling CH, Palsson BØ.  2003.  Genome-scale microbial in silico models: the constraints-based approach.. Trends in biotechnology. 21(4):162-9.
Price ND, Papin JA, Palsson BØ.  2002.  Determination of redundancy and systems properties of the metabolic network of Helicobacter pylori using genome-scale extreme pathway analysis.. Genome research. 12(5):760-9.
Price ND, Famili I, Beard DA, Palsson BØ.  2002.  Extreme pathways and Kirchhoff's second law.. Biophysical journal. 83(5):2879-82.
Price ND, Thiele I, Palsson BØ.  2006.  Candidate states of Helicobacter pylori's genome-scale metabolic network upon application of "loop law" thermodynamic constraints.. Biophysical journal. 90(11):3919-28.
Price ND, Reed JL, Papin JA, Wiback SJ, Palsson BØ.  2003.  Network-based analysis of metabolic regulation in the human red blood cell.. Journal of theoretical biology. 225(2):185-94.
Price ND, Schellenberger J, Palsson BØ.  2004.  Uniform sampling of steady-state flux spaces: means to design experiments and to interpret enzymopathies.. Biophysical journal. 87(4):2172-86.
Price ND, Reed JL, Papin JA, Famili I, Palsson BØ.  2003.  Analysis of metabolic capabilities using singular value decomposition of extreme pathway matrices.. Biophysical journal. 84(2 Pt 1):794-804.
Portnoy VA, Scott DA, Lewis NE, Tarasova Y, Osterman AL, Palsson BØ.  2010.  Deletion of genes encoding cytochrome oxidases and quinol monooxygenase blocks the aerobic-anaerobic shift in Escherichia coli K-12 MG1655.. Applied and environmental microbiology. 76(19):6529-40.
Portnoy VA, Bezdan D, Zengler K.  2011.  Adaptive laboratory evolution--harnessing the power of biology for metabolic engineering.. Curr Opin Biotechnol. 22(4):590-4.
Portnoy VA, Herrgard MJ, Palsson BØ.  2008.  Aerobic fermentation of D-glucose by an evolved cytochrome oxidase-deficient Escherichia coli strain.. Applied and environmental microbiology. 74(24):7561-9.
Peng CA, Palsson BØ.  1996.  Determination of specific oxygen uptake rates in human hematopoietic cultures and implications for bioreactor design.. Annals of biomedical engineering. 24(3):373-81.
Peng CA, Palsson BØ.  1996.  Cell growth and differentiation on feeder layers is predicted to be influenced by bioreactor geometry.. Biotechnology and bioengineering. 50(5):479-92.
Peng CA, Koller MR, Palsson BØ.  1996.  Unilineage model of hematopoiesis predicts self-renewal of stem and progenitor cells based on ex vivo growth data.. Biotechnology and bioengineering. 52(1):24-33.
Patil SA, Gildemyn S, Pant D, Zengler K, Logan BE, Rabaey K.  2015.  A logical data representation framework for electricity-driven bioproduction processes.. Biotechnol Adv. 33(6 Pt 1):736-44.
Papin JA, Palsson BØ.  2004.  Topological analysis of mass-balanced signaling networks: a framework to obtain network properties including crosstalk.. Journal of theoretical biology. 227(2):283-97.
Papin JA, Price ND, Edwards JS, Palsson BØ.  2002.  The genome-scale metabolic extreme pathway structure in Haemophilus influenzae shows significant network redundancy.. Journal of theoretical biology. 215(1):67-82.
Papin JA, Reed JL, Palsson BØ.  2004.  Hierarchical thinking in network biology: the unbiased modularization of biochemical networks.. Trends in biochemical sciences. 29(12):641-7.
Papin JA, Palsson BØ.  2004.  The JAK-STAT signaling network in the human B-cell: an extreme signaling pathway analysis.. Biophysical journal. 87(1):37-46.
Papin JA, Hunter T, Palsson BØ, Subramaniam S.  2005.  Reconstruction of cellular signalling networks and analysis of their properties.. Nature reviews. Molecular cell biology. 6(2):99-111.
Papin JA, Price ND, Wiback SJ, Fell DA, Palsson BØ.  2003.  Metabolic pathways in the post-genome era.. Trends in biochemical sciences. 28(5):250-8.
Papin JA, Stelling J, Price ND, Klamt S, Schuster S, Palsson BØ.  2004.  Comparison of network-based pathway analysis methods.. Trends in biotechnology. 22(8):400-5.
Papin JA, Price ND, Palsson BØ.  2002.  Extreme pathway lengths and reaction participation in genome-scale metabolic networks.. Genome research. 12(12):1889-900.
Palsson BØ.  1997.  What lies beyond bioinformatics? Nature biotechnology. 15(1):3-4.
Palsson BØ, Shen BQ, Meyerhoff ME, Trojanowicz M.  1993.  Simultaneous determination of ammonia nitrogen and L-glutamine in bioreactor media using flow injection.. The Analyst. 118(11):1361-5.
Palsson BØ.  2004.  In silico biotechnology. Era of reconstruction and interrogation.. Current opinion in biotechnology. 15(1):50-1.
Palsson BØ.  2009.  Metabolic systems biology.. FEBS letters. 583(24):3900-4.
Palsson BØ, Price ND, Papin JA.  2003.  Development of network-based pathway definitions: the need to analyze real metabolic networks.. Trends in biotechnology. 21(5):195-8.
Palsson BØ.  2011.  Adaptive Laboratory Evolution. Microbe.
Palsson BØ, Zengler K.  2010.  The challenges of integrating multi-omic data sets.. Nature chemical biology. 6(11):787-9.
Palsson BØ, Paek SH, Schwartz RM, Palsson MA, Lee GM, Silver S, Emerson SG.  1993.  Expansion of human bone marrow progenitor cells in a high cell density continuous perfusion system.. Bio/technology (Nature Publishing Company). 11(3):368-72.
Palsson S, Hickling TP, Bradshaw-Pierce EL, Zager M, Jooss K, Brien PJO, Spilker ME, Palsson BO, Vicini P.  2013.  The development of a fully-integrated immune response model (FIRM) simulator of the immune response through integration of multiple subset models.. BMC Syst Biol. 7(1):95.
Palsson BØ, Lee ID.  1993.  Model complexity has a significant effect on the numerical value and interpretation of metabolic sensitivity coefficients.. Journal of theoretical biology. 161(3):299-315.
Paglia G, Sigurjónsson OE, Bordbar A, Rolfsson O, Magnúsdóttir M, Palsson S, Wichuk K, Gudmundsson S, Palsson BO.  2016.  Metabolic fate of adenine in red blood cells during storage in SAGM solution.. Transfusion.
Paglia G, Sigurjónsson OE, Rolfsson O, Valgeirsdottir S, Hansen MBagge, Brynjólfsson S, Gudmundsson S, Palsson BO.  2014.  Comprehensive metabolomic study of platelets reveals the expression of discrete metabolic phenotypes during storage.. Transfusion.
Paglia G, Magnúsdóttir M, Thorlacius S, Sigurjónsson OE, Guðmundsson S, Palsson BØ, Thiele I.  2012.  Intracellular metabolite profiling of platelets: evaluation of extraction processes and chromatographic strategies.. J Chromatogr B Analyt Technol Biomed Life Sci. 898:111-20.
Paglia G, Sigurjónsson OE, Rolfsson O, Hansen MBagge, Brynjólfsson S, Gudmundsson S, Palsson BO.  2014.  Metabolomic analysis of platelets during storage: a comparison between apheresis- and buffy coat-derived platelet concentrates.. Transfusion.
Paglia G, Williams JP, Menikarachchi L, J Thompson W, Tyldesley-Worster R, Halldórsson S, Rolfsson O, Moseley A, Grant D, Langridge J et al..  2014.  Ion mobility derived collision cross sections to support metabolomics applications.. Anal Chem. 86(8):3985-93.
Paglia G, D'Alessandro A, Rolfsson O, Sigurjónsson OE, Bordbar A, Palsson S, Nemkov T, Hansen KC, Gudmundsson S, Palsson BO.  2016.  Biomarkers defining the metabolic age of red blood cells during cold storage.. Blood.
Paglia G, Hrafnsdóttir S, Magnúsdóttir M, Fleming RMT, Thorlacius S, Palsson BØ, Thiele I.  2012.  Monitoring metabolites consumption and secretion in cultured cells using ultra-performance liquid chromatography quadrupole-time of flight mass spectrometry (UPLC-Q-ToF-MS).. Anal Bioanal Chem. 402(3):1183-98.
Paglia G, Angel P, Williams JP, Richardson K, Olivos HJ, J Thompson W, Menikarachchi L, Lai S, Walsh C, Moseley A et al..  2014.  Ion Mobility-Derived Collision Cross Section As an Additional Measure for Lipid Fingerprinting and Identification.. Anal Chem.
Paglia G, Palsson BØ, Sigurjonsson OE.  2012.  Systems biology of stored blood cells: can it help to extend the expiration date? J Proteomics. 76 Spec No.:163-7.
Pacini T, Fu W, Gudmundsson S, A Chiaravalle E, Brynjolfson S, Palsson BO, Astarita G, Paglia G.  2015.  Multidimensional Analytical Approach Based on UHPLC-UV-Ion Mobility-MS for the Screening of Natural Pigments.. Anal Chem. 87(5):2593-9.

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