Publications of the group Biochemical Network Analysis

Showing entries 21 - 30 out of 63

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2024

Lázaro, J., Júlvez, J., & Zanghellini, J. (2024). Flexible Nets to Improve GEM Cell Factories by Combining Kinetic and Proteomics Data. In R. Gori, P. Milazzo, & M. Tribastone (Eds.), Computational Methods in Systems Biology - 22nd International Conference, CMSB 2024, Proceedings (Vol. 14971, pp. 137-154). Springer Science and Business Media Deutschland GmbH. https://doi.org/10.1007/978-3-031-71671-3_11

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Sedlmayr, V. L., Széliová, D., De Kock, V., Gansemans, Y., Van Nieuwerburgh, F., Peeters, E., Quehenberger, J., Zanghellini, J., & Spadiut, O. (2024). Impact of nutrient excess on physiology and metabolism of Sulfolobus acidocaldarius. Frontiers in Microbiology, 15, Article 1475385. https://doi.org/10.3389/fmicb.2024.1475385

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2023

Gotsmy, M., Strobl, F., Weiß, F., Gruber, P., Kraus, B., Mairhofer, J., & Zanghellini, J. (2023). Sulfate limitation increases specific plasmid DNA yield and productivity in E. coli fed-batch processes. Microbial Cell Factories, 22(1), Article 242. https://doi.org/10.1186/s12934-023-02248-2

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Zehetner, L., Széliová, D., Kraus, B., Graninger, M., Zanghellini, J., & Hernandez Bort, J. A. (2023). Optimizing VLP production in gene therapy: Opportunities and challenges for in silico modeling. Biotechnology Journal, 18(7), Article 2200636. https://doi.org/10.1002/biot.202200636

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Buchner, B., Clement, T. J., de Groot, D. H., & Zanghellini, J. (2023). ecmtool: fast and memory-efficient enumeration of elementary conversion modes. Bioinformatics (Oxford, England), 39(3), Article btad095. https://doi.org/10.1093/bioinformatics/btad095

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2022

El Abiead, Y., Bueschl, C., Panzenboeck, L., Wang, M., Doppler, M., Seidl, B., Zanghellini, J., Dorrestein, P. C., & Koellensperger, G. (2022). Heterogeneous multimeric metabolite ion species observed in LC-MS based metabolomics data sets. Analytica Chimica Acta, 1229, Article 340352. https://doi.org/10.1016/j.aca.2022.340352

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Mildau, K., van der Hooft, J. J. J., Flasch, M., Warth, B., El Abiead, Y., Koellensperger, G., Zanghellini, J., & Bueschl, C. (2022). Homologue Series Detection and Management in LC-MS data with homologueDiscoverer. Bioinformatics, 38(22), 5139-5140. Article btac647. https://doi.org/10.1093/bioinformatics/btac647

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Gotsmy, M., Brunmair, J., Bueschl, C., Gerner, C., & Zanghellini, J. (2022). Probabilistic quotient's work and pharmacokinetics' contribution: countering size effect in metabolic time series measurements. BMC Bioinformatics, 23(1), Article 379. https://doi.org/10.1186/s12859-022-04918-1

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Bueschl, C., Doppler, M., Varga, E., Seidl, B., Flasch, M., Warth, B., & Zanghellini, J. (2022). PeakBot: machine-learning-based chromatographic peak picking. Bioinformatics, 38(13), 3422-3428. https://doi.org/10.1093/bioinformatics/btac344

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Müller, S., Szeliova, D., & Zanghellini, J. (2022). Elementary vectors and autocatalytic sets for resource allocation in next-generation models of cellular growth. PLoS Computational Biology, 18(2), Article e1009843. https://doi.org/10.1371/journal.pcbi.1009843

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Activities of the group Biochemical Network Analysis

Showing entries 1 - 10 out of 145

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Confessiones: what works and what doesn't

Jürgen Zanghellini

MATOMIC Meeting

Conference, Talk or oral contribution

19.5.2026 - 19.5.2026

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A Geometric View of Community Metabolism

Michael Predl , Stefan Müller , Diana Szeliova , Jürgen Zanghellini

10th Conference on Constraint-Based Reconstruction and Analysis (COBRA2026)

Conference, Talk or oral contribution

17.3.2026 - 17.3.2026

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Genome-scale metabolic modeling of the fungal genus Komagataella

Leopold Zehetner , Zelenka Judith , Jürgen Zanghellini

10th Conference on Constraint-Based Reconstruction and Analysis (COBRA2026)

Conference, Poster presentation

17.3.2026 - 17.3.2026

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Pan genome-scale metabolic modeling of Sulfolobus genus reveals medium - dependent metabolic diversity

Maria Jose Rimon Martinez , Ana Cristina Gouveia Carvalho , Leopold Zehetner , Julian Quehenberger , Jürgen Zanghellini

10th Conference on Constraint-Based Reconstruction and Analysis (COBRA2026)

Conference, Poster presentation

17.3.2026 - 17.3.2026

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