Team:Tuebingen/References

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Bibliography

(Hine & Martin, 2015)
Hine, R., & Martin, E. (2015). A Dictionary of Biology (7th ed.). OUP Oxford.

(Orth et al., 2010)
Orth, Jeffrey D., Ines Thiele, and Bernhard Ø. Palsson. “What Is Flux Balance Analysis?” Nature Biotechnology 28, no. 3 (March 2010): 245–48. doi:10.1038/nbt.1614. Orth, J. D., Thiele, I., & Palsson, B. Ø. (2010). What is flux balance analysis? Nature Biotechnology, 28(3), 245–248. https://doi.org/10.1038/nbt.1614

(Wattam et al., 2014)
Wattam, A. R., Abraham, D., Dalay, O., Disz, T. L., Driscoll, T., Gabbard, J. L., … Sobral, B. W. (2014). PATRIC, the bacterial bioinformatics database and analysis resource. Nucleic Acids Research, 42(Database issue), D581–D591. https://doi.org/10.1093/nar/gkt1099

(King et al., 2015)
King, Z. A., Dräger, A., Ebrahim, A., Sonnenschein, N., Lewis, N. E., & Palsson, B. O. (2015). Escher: A Web Application for Building, Sharing, and Embedding Data-Rich Visualizations of Biological Pathways. PLOS Comput Biol, 11(8), e1004321. https://doi.org/10.1371/journal.pcbi.1004321

(Ebrahim, Lerman, Palsson, & Hyduke, 2013)
Ebrahim, A., Lerman, J. A., Palsson, B. O., & Hyduke, D. R. (2013). COBRApy: COnstraints-Based Reconstruction and Analysis for Python. BMC Systems Biology, 7, 74. https://doi.org/10.1186/1752-0509-7-74

(Perez & Granger, 2007)
Perez, F., & Granger, B. E. (2007). IPython: A System for Interactive Scientific Computing. Computing in Science Engineering, 9(3), 21–29. https://doi.org/10.1109/MCSE.2007.53

(Teusink et al., 2006)
Teusink, B., Wiersma, A., Molenaar, D., Francke, C., Vos, W. M. de, Siezen, R. J., & Smid, E. J. (2006). Analysis of Growth of Lactobacillus plantarum WCFS1 on a Complex Medium Using a Genome-scale Metabolic Model. Journal of Biological Chemistry, 281(52), 40041–40048. https://doi.org/10.1074/jbc.M606263200

(Li et al., 2010)
Li, C., Donizelli, M., Rodriguez, N., Dharuri, H., Endler, L., Chelliah, V., … Laibe, C. (2010). BioModels Database: An enhanced, curated and annotated resource for published quantitative kinetic models. BMC Systems Biology, 4, 92. https://doi.org/10.1186/1752-0509-4-92

(King et al., 2016)
King, Z. A., Lu, J., Dräger, A., Miller, P., Federowicz, S., Lerman, J. A., … Lewis, N. E. (2016). BiGG Models: A platform for integrating, standardizing and sharing genome-scale models. Nucleic Acids Research, 44(D1), D515–D522. https://doi.org/10.1093/nar/gkv1049

(Büchel et al., 2013)
Büchel, F., Rodriguez, N., Swainston, N., Wrzodek, C., Czauderna, T., Keller, R., … Le Novère, N. (2013). Path2Models: large-scale generation of computational models from biochemical pathway maps. BMC Systems Biology, 7, 116. https://doi.org/10.1186/1752-0509-7-116