cff-version: 1.2.0
abstract: "<p>Data and code associated with the paper Synergistic regulatory mechanisms in glycolysis revealed by pathway transplantation. In this study the role of protein allostery in the regulation of yeast glycolysis is studied by replacing the complete pathway in <em>S. cerevisiae </em>with that from<em>Yarrowia lipolytica. </em>By using complete pathway complementation, as well as single gene complementation, the essential regulatory steps were identified to be glucokinase, phosphofructokinase and pyruvate kinase. Expression of these enzymes together, even in the context of the <em>S. cerevisiae </em>pathway led to imbalances in glycolysis which could only be overcome by lowering the glucokinase activity. In this repository, the adapted kinetic model is included (which was adapted from Van Heerden et al. 2014) used to study the effect of single regulatory steps on the glycolytic pathwya (figure 6A). Also included are the files and code used for the microfluidics data analysis for the single cell metabolic responses (shown in figure 7). This contains the code used to recognize cells and process the microscope pictures (under code), the processed microfluidics data in the form of .pickle files, a jupyter notebook where these are analyzed and plotted and the resulting figures. </p>"
authors:
  - family-names: Knibbe
    given-names: Ewout
    orcid: "https://orcid.org/0009-0007-0835-1285"
  - family-names: Boonekamp
    given-names: Francine J.
  - family-names: Stuij
    given-names: Rachel
  - family-names: Savakis
    given-names: Philipp
    orcid: "https://orcid.org/0000-0001-5715-6047"
  - family-names: Pelsma
    given-names: Koen
    orcid: "https://orcid.org/0000-0003-3746-6528"
  - family-names: Jansen
    given-names: Liset
  - family-names: Flores
    given-names: Carmen-Lisset
  - family-names: Teusink
    given-names: Bas
  - family-names: Daran-Lapujade
    given-names: Pascale
    orcid: "https://orcid.org/0000-0002-4097-7831"
title: "Data and code underlying the publication: Synergistic regulatory mechanisms in glycolysis revealed by pathway transplantation "
keywords:
version: 1
identifiers:
  - type: doi
    value: 10.4121/79f009a8-f098-4135-ab03-fc3c97c7ef19.v1
license: CC0
date-released: 2025-10-21