| _version_ | 1866902333653254144 |
|---|---|
| author | Julou, Thomas Gervais, Théo van Nimwegen, Erik |
| author_facet | Julou, Thomas Gervais, Théo van Nimwegen, Erik |
| contents | <p>Image data for microfluidic experiments reported in the article <em>Growth rate controls the sensitivity of gene regulatory circuits</em>.</p> <p>Single-cell data used for analysis are obtained by running the image analysis software MoMA (followed by total fluorescence estimation), and available at https://doi.org/10.5281/zenodo.7429484.</p> <p>Two series of experiments of have been conducted, where bacterial growth and <em>lac</em> operon expression are monitored using phase contrast and epifluorescence microscopy (measuring a translational LacZ-GFP fusion):</p> <ul> <li>"Transient growth arrest": <em>Escherichia coli</em> cells are exposed to M9 minimal medium with glycerol, and then to media containing TMG inducer either with glycerol or with lactulose (data from 4 independent experiments).</li> <li>"Concentration-dependent glucose/lactose preference": <em>Escherichia coli</em> cells pre-grown in M9 minimal medium with 0.2% glucose are grown in mother machine microfluidic chips in one of the following conditions (data from 6 independent experiments with up to 8 conditions per experiments): <ul> <li>lactose 0.02% with variable glucose concentration (2µM to 128µM)</li> <li>variable glucose concentration (2µM to 128µM)</li> <li>variable glucose concentration (2µM to 128µM) with 200µM IPTG.</li> </ul> </li> </ul> <p>Each tar.gz file corresponds to a given date and conditions as described below (also available in Julou_2022_GCS_series.csv). A list of all files available in this repository is provided in Julou_2022_GCS_GL_Images_fileList.txt.</p> <pre><code>dir,condition 20180712,switch_glycerol_TMG20 20181008,switch_lactulose_TMG20 20181009,switch_lactulose_TMG20 20181024,switch_lactulose 20210122_S0,glu2uM 20210122_S1,lac002 20210122_S2,lac002_glu2uM 20210122_S3,lac002_glu4uM 20210122_S4,lac002_glu8uM 20210122_S5,lac002_glu16uM 20210122_S6,lac002_glu32uM 20210122_S7,lac002_glu002 20210305_S0,glu2uM 20210305_S1,lac002 20210305_S2,lac002_glu2uM 20210305_S3,lac002_glu4uM 20210305_S4,lac002_glu8uM 20210305_S5,lac002_glu16uM 20210305_S6,lac002_glu32uM 20210305_S7,lac002_glu002 20210504_S0,lac002_glu16uM 20210504_S1,lac002_glu32uM 20210504_S2,lac002_glu64uM 20210504_S3,lac002_glu128uM 20210504_S4,glu2uM+IPTG 20210504_S5,glu8uM+IPTG 20210504_S6,glu32uM+IPTG 20210506_S2,lac002_glu64uM 20210506_S3,lac002_glu128uM 20210506_S4,glu2uM+IPTG 20210506_S5,glu8uM+IPTG 20210506_S6,glu32uM+IPTG 20210506_S7,glu128uM+IPTG 20210513_S0,glu2uM 20210513_S1,glu4uM 20210513_S2,glu8uM 20210513_S3,glu16uM 20210513_S4,glu32uM 20210513_S5,glu64uM 20210513_S6,glu2uM+IPTG 20210513_S7,glu128uM+IPTG 20210708_S0,glu8uM 20210708_S1,glu32uM 20210708_S2,glu128uM 20210708_S4,glu002 20210708_S5,M9zero 20210708_S6,glu02 20210708_S7,lac002_glu128uM</code></pre> <p> </p> |
| format | Recurso digital |
| id | zenodo_https___doi_org_10_5281_zenodo_6684959 |
| institution | Zenodo |
| language | eng |
| publishDate | 2022 |
| publisher | Zenodo |
| record_format | zenodo |
| spellingShingle | Image dataset of "Growth rate controls the sensitivity of gene regulatory circuits" Julou, Thomas Gervais, Théo van Nimwegen, Erik <p>Image data for microfluidic experiments reported in the article <em>Growth rate controls the sensitivity of gene regulatory circuits</em>.</p> <p>Single-cell data used for analysis are obtained by running the image analysis software MoMA (followed by total fluorescence estimation), and available at https://doi.org/10.5281/zenodo.7429484.</p> <p>Two series of experiments of have been conducted, where bacterial growth and <em>lac</em> operon expression are monitored using phase contrast and epifluorescence microscopy (measuring a translational LacZ-GFP fusion):</p> <ul> <li>"Transient growth arrest": <em>Escherichia coli</em> cells are exposed to M9 minimal medium with glycerol, and then to media containing TMG inducer either with glycerol or with lactulose (data from 4 independent experiments).</li> <li>"Concentration-dependent glucose/lactose preference": <em>Escherichia coli</em> cells pre-grown in M9 minimal medium with 0.2% glucose are grown in mother machine microfluidic chips in one of the following conditions (data from 6 independent experiments with up to 8 conditions per experiments): <ul> <li>lactose 0.02% with variable glucose concentration (2µM to 128µM)</li> <li>variable glucose concentration (2µM to 128µM)</li> <li>variable glucose concentration (2µM to 128µM) with 200µM IPTG.</li> </ul> </li> </ul> <p>Each tar.gz file corresponds to a given date and conditions as described below (also available in Julou_2022_GCS_series.csv). A list of all files available in this repository is provided in Julou_2022_GCS_GL_Images_fileList.txt.</p> <pre><code>dir,condition 20180712,switch_glycerol_TMG20 20181008,switch_lactulose_TMG20 20181009,switch_lactulose_TMG20 20181024,switch_lactulose 20210122_S0,glu2uM 20210122_S1,lac002 20210122_S2,lac002_glu2uM 20210122_S3,lac002_glu4uM 20210122_S4,lac002_glu8uM 20210122_S5,lac002_glu16uM 20210122_S6,lac002_glu32uM 20210122_S7,lac002_glu002 20210305_S0,glu2uM 20210305_S1,lac002 20210305_S2,lac002_glu2uM 20210305_S3,lac002_glu4uM 20210305_S4,lac002_glu8uM 20210305_S5,lac002_glu16uM 20210305_S6,lac002_glu32uM 20210305_S7,lac002_glu002 20210504_S0,lac002_glu16uM 20210504_S1,lac002_glu32uM 20210504_S2,lac002_glu64uM 20210504_S3,lac002_glu128uM 20210504_S4,glu2uM+IPTG 20210504_S5,glu8uM+IPTG 20210504_S6,glu32uM+IPTG 20210506_S2,lac002_glu64uM 20210506_S3,lac002_glu128uM 20210506_S4,glu2uM+IPTG 20210506_S5,glu8uM+IPTG 20210506_S6,glu32uM+IPTG 20210506_S7,glu128uM+IPTG 20210513_S0,glu2uM 20210513_S1,glu4uM 20210513_S2,glu8uM 20210513_S3,glu16uM 20210513_S4,glu32uM 20210513_S5,glu64uM 20210513_S6,glu2uM+IPTG 20210513_S7,glu128uM+IPTG 20210708_S0,glu8uM 20210708_S1,glu32uM 20210708_S2,glu128uM 20210708_S4,glu002 20210708_S5,M9zero 20210708_S6,glu02 20210708_S7,lac002_glu128uM</code></pre> <p> </p> |
| title | Image dataset of "Growth rate controls the sensitivity of gene regulatory circuits" |
| url | https://doi.org/10.5281/zenodo.6684959 |