Quantitative -omic data empowers bottom-up systems biology.
作者： James T Yurkovich , Bernhard O Palsson
DOI: 10.1016/J.COPBIO.2018.01.009
关键词:
摘要: The large-scale generation of ‘-omic’ data holds the potential to increase and deepen our understanding biological phenomena, but ability synthesize information extract knowledge from these sets still represents a significant challenge. Bottom-up systems biology overcomes this hurdle through integration disparate -omic types, absolutely quantified experimental measurements allow for direct into quantitative, mechanistic models. human red blood cell has served as starting point application approaches been focus recent burst generated quantitative metabolomics proteomics data. Thus, perfect case study which examine glean multiple types.
sci-hub.se 参考文章(81)
Aarash Bordbar, Bernhard Ø. Palsson, Moving Toward Genome-Scale Kinetic Models: The Mass Action Stoichiometric Simulation Approach Functional Coherence of Molecular Networks in Bioinformatics. pp. 201- 220 ,(2012) , 10.1007/978-1-4614-0320-3_8
Alan Saghatelian, Gary J. Patti, Nicola Zamboni, Defining the metabolome: size, flux, and regulation. Molecular Cell. ,vol. 58, pp. 699- 706 ,(2015) , 10.1016/J.MOLCEL.2015.04.021
Angelo D'Alessandro, Travis Nemkov, Kirk C. Hansen, Zbigniew M. Szczepiorkowski, Larry J. Dumont, Red blood cell storage in additive solution-7 preserves energy and redox metabolism: a metabolomics approach Transfusion. ,vol. 55, pp. 2955- 2966 ,(2015) , 10.1111/TRF.13253
Abhay Joshi, Bernhard O. Palsson, Metabolic dynamics in the human red cell. Part I--A comprehensive kinetic model. Journal of Theoretical Biology. ,vol. 141, pp. 515- 528 ,(1989) , 10.1016/S0022-5193(89)80233-4
Giuseppe Paglia, Ólafur E. Sigurjónsson, Óttar Rolfsson, Morten Bagge Hansen, Sigurður Brynjólfsson, Sveinn Gudmundsson, Bernhard O. Palsson, Metabolomic analysis of platelets during storage: a comparison between apheresis- and buffy coat-derived platelet concentrates. Transfusion. ,vol. 55, pp. 301- 313 ,(2015) , 10.1111/TRF.12834
Aarash Bordbar, Douglas McCloskey, Daniel C. Zielinski, Nikolaus Sonnenschein, Neema Jamshidi, Bernhard O. Palsson, Personalized Whole-Cell Kinetic Models of Metabolism for Discovery in Genomics and Pharmacodynamics Cell systems. ,vol. 1, pp. 283- 292 ,(2015) , 10.1016/J.CELS.2015.10.003
Douglas McCloskey, Jon A. Gangoiti, Zachary A. King, Robert K. Naviaux, Bruce A. Barshop, Bernhard O. Palsson, Adam M. Feist, A model-driven quantitative metabolomics analysis of aerobic and anaerobic metabolism in E. coli K-12 MG1655 that is biochemically and thermodynamically consistent. Biotechnology and Bioengineering. ,vol. 111, pp. 803- 815 ,(2014) , 10.1002/BIT.25133
Angelo D'alessandro, Travis Nemkov, Marguerite Kelher, F Bernadette West, Rani K Schwindt, Anirban Banerjee, Ernest E Moore, Christopher C Silliman, Kirk C Hansen, None, Routine storage of red blood cell (RBC) units in additive solution‐3: a comprehensive investigation of the RBC metabolome Transfusion. ,vol. 55, pp. 1155- 1168 ,(2015) , 10.1111/TRF.12975
Hui Ge, Albertha J.M Walhout, Marc Vidal, Integrating 'omic' information: a bridge between genomics and systems biology. Trends in Genetics. ,vol. 19, pp. 551- 560 ,(2003) , 10.1016/J.TIG.2003.08.009
Stalin Selvaraj, Sridharan Krishnaswamy, Venkappayya Devashya, Swaminathan Sethuraman, Uma Maheswari Krishnan, Influence of membrane lipid composition on flavonoid-membrane interactions: Implications on their biological activity. Progress in Lipid Research. ,vol. 58, pp. 1- 13 ,(2015) , 10.1016/J.PLIPRES.2014.11.002