<entry xmlns="http://pdbe.org/empiar" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="https://ftp.ebi.ac.uk/pub/databases/emtest/empiar/schema/empiar.xsd" accessionCode="EMPIAR-11453" schemaVersion="0.63" public="true">
    <admin>
        <currentStatus>REL</currentStatus>
        <keyDates>
            <depositionDate>2023-03-07</depositionDate>
            <releaseDate>2023-07-10</releaseDate>
            <updateDate>2023-07-10</updateDate>
        </keyDates>
        <title>Cryo electron tomography of induced protrusions of cofilin or control knock-down Drosophila S2 cells - Datasets 9 - 12</title>
        <correspondingAuthor private="true">
            <authorORCID>0000-0002-4406-5151</authorORCID>
            <firstName>Camilla</firstName>
            <lastName>Ventura Santos</lastName>
            <organization type="academic">MRC Laboratory of Molecular Biology</organization>
            <street>Cambridge Biomedical Campus, Francis Crick Ave</street>
            <townOrCity>Cambridge</townOrCity>
            <stateOrProvince>Cambridgeshire</stateOrProvince>
            <country>United Kingdom</country>
            <postOrZipCode>CB2 0QH</postOrZipCode>
        </correspondingAuthor>
        <principalInvestigator private="true">
            <authorORCID>0000-0001-7292-5430</authorORCID>
            <firstName>Andrew</firstName>
            <lastName>Carter</lastName>
            <organization type="academic">MRC Laboratory of Molecular Biology</organization>
            <street>Cambridge Biomedical Campus, Francis Crick Ave</street>
            <townOrCity>Cambridge</townOrCity>
            <stateOrProvince>Cambridgeshire</stateOrProvince>
            <country>United Kingdom</country>
            <postOrZipCode>CB2 0QH</postOrZipCode>
        </principalInvestigator>
        <authorsList>
            <author authorORCID="0000-0002-4406-5151">Ventura Santos C</author>
            <author authorORCID="0000-0001-7292-5430">Carter AP</author>
            <author>Rogers SL</author>
        </authorsList>
        <grantSupport>
            <grantReference>
                <fundingBody>Medical Research Council (MRC, United Kingdom)</fundingBody>
                <code>MC_UP_A025_1011</code>
                <country>United Kingdom</country>
            </grantReference>
            <grantReference>
                <fundingBody>Welch Foundation</fundingBody>
                <code>210711/Z/18/Z</code>
                <country>United Kingdom</country>
            </grantReference>
        </grantSupport>
        <datasetSize units="GB">491.9</datasetSize>
        <entryDOI>10.6019/EMPIAR-11453</entryDOI>
        <experimentType>EMDB</experimentType>
        <scale>cell</scale>
    </admin>
    <crossReferences>
        <relatedEMDBEntries>
            <emdbEntry>EMD-16800</emdbEntry>
            <emdbEntry>EMD-16811</emdbEntry>
        </relatedEMDBEntries>
        <citationList>
            <universalCitation>
                <journalCitation published="false" preprint="true">
                    <author authorORCID="0000-0002-4406-5151" order="1">Ventura Santos C</author>
                    <author authorORCID="0000-0001-7292-5430" order="2">Carter AP</author>
                    <author order="3">Rogers SL</author>
                    <title>CryoET shows cofilactin filaments inside the microtubule lumen</title>
                    <journal></journal>
                    <journalAbbreviation></journalAbbreviation>
                    <country></country>
                </journalCitation>
            </universalCitation>
        </citationList>
    </crossReferences>
    <imageSet>
        <name>Dataset 9 part 1: Raw multi-frame tilt images of induced protrusions of control and cofilin knock-down Drosophila S2 cells</name>
        <directory>/data/Dataset9_part1_221208/raw_movies</directory>
        <category>micrographs - multiframe</category>
        <headerFormat>TIFF</headerFormat>
        <dataFormat>TIFF</dataFormat>
        <numImagesOrTiltSeries>28</numImagesOrTiltSeries>
        <framesPerImage>14</framesPerImage>
        <voxelType>UNSIGNED BYTE</voxelType>
        <dimensions>
            <imageWidth>5760</imageWidth>
            <pixelWidth>2.659</pixelWidth>
            <imageHeight>4092</imageHeight>
            <pixelHeight>2.659</pixelHeight>
        </dimensions>
        <details>Data from Dataset 9 part 1: Raw multi-frame movies of tilt series collected on protrusions of control or cofilin knock-down Drosophila S2 cells treated with 2.5 uM Cytochalsin D for 2 hours and 2 uM thapsigargin for 5 hours. The gain reference is provided within the main folder. Data was collected on a K3 camera at a pixel size of 2.659 Å / pixel. Metadata from tilt series acquisition (Mdoc files) is provided inside the Mdoc_files folder.
TS_330 - TS_351 are from cofilin knock-down cells. TS_352 - TS_366 are from control knock-down cells.</details>
        <segmentationList/>
        <micrographsFilePattern></micrographsFilePattern>
        <pickedParticlesFilePattern></pickedParticlesFilePattern>
        <pickedParticlesDirectory></pickedParticlesDirectory>
    </imageSet>
    <imageSet>
        <name>Dataset 9 part 1: Binned, deconvolved tomograms of induced protrusions of control and cofilin knock-down Drosophila S2 cells</name>
        <directory>/data/Dataset9_part1_221208/bin4_deconvolved_tomograms</directory>
        <category>reconstructed volumes</category>
        <headerFormat>MRC</headerFormat>
        <dataFormat>MRC</dataFormat>
        <numImagesOrTiltSeries>28</numImagesOrTiltSeries>
        <framesPerImage>14</framesPerImage>
        <voxelType>32 BIT FLOAT</voxelType>
        <dimensions>
            <imageWidth>920</imageWidth>
            <pixelWidth>11.81</pixelWidth>
            <imageHeight>1298</imageHeight>
            <pixelHeight>11.81</pixelHeight>
        </dimensions>
        <details>Dataset 9 part 1: Tomograms binned to 11.81 Å/ pixel, reconstructed and deconvolved in WARP.
TS_330 - TS_351 are from cofilin knock-down cells. TS_352 - TS_366 are from control knock-down cells.</details>
        <segmentationList/>
        <micrographsFilePattern></micrographsFilePattern>
        <pickedParticlesFilePattern></pickedParticlesFilePattern>
        <pickedParticlesDirectory></pickedParticlesDirectory>
    </imageSet>
    <imageSet>
        <name>Dataset 9 part 2: Raw multi-frame tilt images of induced protrusions of control and cofilin knock-down Drosophila S2 cells</name>
        <directory>/data/Dataset9_part2_221217/raw_movies</directory>
        <category>micrographs - multiframe</category>
        <headerFormat>TIFF</headerFormat>
        <dataFormat>TIFF</dataFormat>
        <numImagesOrTiltSeries>8</numImagesOrTiltSeries>
        <framesPerImage>14</framesPerImage>
        <voxelType>UNSIGNED 16 BIT INTEGER</voxelType>
        <dimensions>
            <imageWidth>3710</imageWidth>
            <pixelWidth>2.952</pixelWidth>
            <imageHeight>3838</imageHeight>
            <pixelHeight>2.952</pixelHeight>
        </dimensions>
        <details>Data from Dataset 9 part 2: Raw multi-frame movies of tilt series collected on protrusions of control or cofilin knock-down Drosophila S2 cells treated with 2.5 uM Cytochalsin D for 2 hours and 2 uM thapsigargin for 5 hours. The gain reference and defects files are provided within the main folder. Data was collected on a K2 summit camera at a pixel size of 2.952 Å / pixel. Metadata from tilt series acquisition (Mdoc files) is provided inside the Mdoc_files folder.
TS_462 - TS_470 are from control knock-down cells.</details>
        <segmentationList/>
        <micrographsFilePattern></micrographsFilePattern>
        <pickedParticlesFilePattern></pickedParticlesFilePattern>
        <pickedParticlesDirectory></pickedParticlesDirectory>
    </imageSet>
    <imageSet>
        <name>Dataset 9 part 2: Binned, deconvolved tomograms of induced protrusions of control and cofilin knock-down Drosophila S2 cells</name>
        <directory>/data/Dataset9_part2_221217/bin4_deconvolved_tomograms</directory>
        <category>reconstructed volumes</category>
        <headerFormat>MRC</headerFormat>
        <dataFormat>MRC</dataFormat>
        <numImagesOrTiltSeries>8</numImagesOrTiltSeries>
        <framesPerImage>14</framesPerImage>
        <voxelType>32 BIT FLOAT</voxelType>
        <dimensions>
            <imageWidth>960</imageWidth>
            <pixelWidth>11.81</pixelWidth>
            <imageHeight>928</imageHeight>
            <pixelHeight>11.81</pixelHeight>
        </dimensions>
        <details>Dataset 9 part 2: Tomograms binned by 4 (11.81 Å/ pixel), reconstructed and deconvolved in WARP.
TS_462 - TS_470 are from control knock-down cells.</details>
        <segmentationList/>
        <micrographsFilePattern></micrographsFilePattern>
        <pickedParticlesFilePattern></pickedParticlesFilePattern>
        <pickedParticlesDirectory></pickedParticlesDirectory>
    </imageSet>
    <imageSet>
        <name>Dataset 10: Raw multi-frame tilt images of induced protrusions of control and cofilin knock-down Drosophila S2 cells</name>
        <directory>/data/Dataset10_221215/raw_movies</directory>
        <category>micrographs - multiframe</category>
        <headerFormat>TIFF</headerFormat>
        <dataFormat>TIFF</dataFormat>
        <numImagesOrTiltSeries>34</numImagesOrTiltSeries>
        <framesPerImage>14</framesPerImage>
        <voxelType>UNSIGNED 16 BIT INTEGER</voxelType>
        <dimensions>
            <imageWidth>3710</imageWidth>
            <pixelWidth>2.952</pixelWidth>
            <imageHeight>3838</imageHeight>
            <pixelHeight>2.952</pixelHeight>
        </dimensions>
        <details>Data from Dataset 10: Raw multi-frame movies of tilt series collected on protrusions of control or cofilin knock-down Drosophila S2 cells treated with 2.5 uM Cytochalsin D for 2 hours and 2 uM thapsigargin for 5 hours. The gain reference and defects files are provided within the main folder. Data was collected on a K2 summit camera at a pixel size of 2.952 Å / pixel. Metadata from tilt series acquisition (Mdoc files) is provided inside the Mdoc_files folder.
TS_424 - TS_442 are from cofilin knock-down cells. TS_443 - TS_461 are from control knock-down cells.</details>
        <segmentationList/>
        <micrographsFilePattern></micrographsFilePattern>
        <pickedParticlesFilePattern></pickedParticlesFilePattern>
        <pickedParticlesDirectory></pickedParticlesDirectory>
    </imageSet>
    <imageSet>
        <name>Dataset 10: Binned, deconvolved tomograms of induced protrusions of control and cofilin knock-down Drosophila S2 cells</name>
        <directory>/data/Dataset10_221215/bin4_deconvolved_tomograms</directory>
        <category>reconstructed volumes</category>
        <headerFormat>MRC</headerFormat>
        <dataFormat>MRC</dataFormat>
        <numImagesOrTiltSeries>34</numImagesOrTiltSeries>
        <framesPerImage>14</framesPerImage>
        <voxelType>32 BIT FLOAT</voxelType>
        <dimensions>
            <imageWidth>960</imageWidth>
            <pixelWidth>11.81</pixelWidth>
            <imageHeight>928</imageHeight>
            <pixelHeight>11.81</pixelHeight>
        </dimensions>
        <details>Dataset 10: Tomograms binned by 4 (11.81 Å/ pixel), reconstructed and deconvolved in WARP.
TS_424 - TS_442 are from cofilin knock-down cells. TS_443 - TS_461 are from control knock-down cells.</details>
        <segmentationList/>
        <micrographsFilePattern></micrographsFilePattern>
        <pickedParticlesFilePattern></pickedParticlesFilePattern>
        <pickedParticlesDirectory></pickedParticlesDirectory>
    </imageSet>
    <imageSet>
        <name>Dataset 11 part 1: Raw multi-frame tilt images of induced protrusions of control and cofilin knock-down Drosophila S2 cells</name>
        <directory>/data/Dataset11_230202_part1/raw_movies</directory>
        <category>micrographs - multiframe</category>
        <headerFormat>TIFF</headerFormat>
        <dataFormat>TIFF</dataFormat>
        <numImagesOrTiltSeries>32</numImagesOrTiltSeries>
        <framesPerImage>14</framesPerImage>
        <voxelType>UNSIGNED 16 BIT INTEGER</voxelType>
        <dimensions>
            <imageWidth>3710</imageWidth>
            <pixelWidth>2.952</pixelWidth>
            <imageHeight>3838</imageHeight>
            <pixelHeight>2.952</pixelHeight>
        </dimensions>
        <details>Data from Dataset 11 part 1: Raw multi-frame movies of tilt series collected on protrusions of control or cofilin knock-down Drosophila S2 cells treated with 2.5 uM Cytochalsin D for 2 hours and 2 uM thapsigargin for 5 hours. The gain reference and defects files are provided within the main folder. Data was collected on a K2 summit camera at a pixel size of 2.952 Å / pixel. Metadata from tilt series acquisition (Mdoc files) is provided inside the Mdoc_files folder.
TS_495 - TS_505 are from cofilin knock-down cells. TS_506 - TS_527 are from control knock-down cells.</details>
        <segmentationList/>
        <micrographsFilePattern></micrographsFilePattern>
        <pickedParticlesFilePattern></pickedParticlesFilePattern>
        <pickedParticlesDirectory></pickedParticlesDirectory>
    </imageSet>
    <imageSet>
        <name>Dataset 11 part 1: Binned, deconvolved tomograms of induced protrusions of control and cofilin knock-down Drosophila S2 cells</name>
        <directory>/data/Dataset11_230202_part1/bin4_deconvolved_tomograms</directory>
        <category>reconstructed volumes</category>
        <headerFormat>MRC</headerFormat>
        <dataFormat>MRC</dataFormat>
        <numImagesOrTiltSeries>32</numImagesOrTiltSeries>
        <framesPerImage>14</framesPerImage>
        <voxelType>32 BIT FLOAT</voxelType>
        <dimensions>
            <imageWidth>960</imageWidth>
            <pixelWidth>11.8</pixelWidth>
            <imageHeight>928</imageHeight>
            <pixelHeight>11.8</pixelHeight>
        </dimensions>
        <details>Dataset 11 part 1: Tomograms binned by 4 (11.8 Å/ pixel), reconstructed and deconvolved in WARP.
TS_495 - TS_505 are from cofilin knock-down cells. TS_506 - TS_527 are from control knock-down cells.</details>
        <segmentationList/>
        <micrographsFilePattern></micrographsFilePattern>
        <pickedParticlesFilePattern></pickedParticlesFilePattern>
        <pickedParticlesDirectory></pickedParticlesDirectory>
    </imageSet>
    <imageSet>
        <name>Dataset 11 part 2: Raw multi-frame tilt images of induced protrusions of control and cofilin knock-down Drosophila S2 cells</name>
        <directory>/data/Dataset11_221212_part2/raw_movies</directory>
        <category>micrographs - multiframe</category>
        <headerFormat>TIFF</headerFormat>
        <dataFormat>TIFF</dataFormat>
        <numImagesOrTiltSeries>3</numImagesOrTiltSeries>
        <framesPerImage>14</framesPerImage>
        <voxelType>UNSIGNED BYTE</voxelType>
        <dimensions>
            <imageWidth>5760</imageWidth>
            <pixelWidth>2.659</pixelWidth>
            <imageHeight>4092</imageHeight>
            <pixelHeight>2.659</pixelHeight>
        </dimensions>
        <details>Data from Dataset 11 part 2: Raw multi-frame movies of tilt series collected on protrusions of control or cofilin knock-down Drosophila S2 cells treated with 2.5 uM Cytochalsin D for 2 hours and 2 uM thapsigargin for 5 hours. The gain reference is provided within the main folder. Data was collected on a K3 camera at a pixel size of 2.659 Å / pixel. Metadata from tilt series acquisition (Mdoc files) is provided inside the Mdoc_files folder.
TS_367, TS_371, TS_380 are from cofilin knock-down cells.</details>
        <segmentationList/>
        <micrographsFilePattern></micrographsFilePattern>
        <pickedParticlesFilePattern></pickedParticlesFilePattern>
        <pickedParticlesDirectory></pickedParticlesDirectory>
    </imageSet>
    <imageSet>
        <name>Dataset 11 part 2: Binned, deconvolved tomograms of induced protrusions of control and cofilin knock-down Drosophila S2 cells</name>
        <directory>/data/Dataset11_221212_part2/bin4_deconvolved_tomograms</directory>
        <category>reconstructed volumes</category>
        <headerFormat>MRC</headerFormat>
        <dataFormat>MRC</dataFormat>
        <numImagesOrTiltSeries>3</numImagesOrTiltSeries>
        <framesPerImage>14</framesPerImage>
        <voxelType>32 BIT FLOAT</voxelType>
        <dimensions>
            <imageWidth>1022</imageWidth>
            <pixelWidth>10.64</pixelWidth>
            <imageHeight>1440</imageHeight>
            <pixelHeight>10.64</pixelHeight>
        </dimensions>
        <details>Dataset 11 part 2: Tomograms binned by 4 (10.64 Å/ pixel), reconstructed and deconvolved in WARP.
TS_367, TS_371, TS_380 are from cofilin knock-down cells.</details>
        <segmentationList/>
        <micrographsFilePattern></micrographsFilePattern>
        <pickedParticlesFilePattern></pickedParticlesFilePattern>
        <pickedParticlesDirectory></pickedParticlesDirectory>
    </imageSet>
    <imageSet>
        <name>Dataset 12: Raw multi-frame tilt images of induced protrusions of control and cofilin knock-down Drosophila S2 cells</name>
        <directory>/data/Dataset12_230202/raw_movies</directory>
        <category>micrographs - multiframe</category>
        <headerFormat>TIFF</headerFormat>
        <dataFormat>TIFF</dataFormat>
        <numImagesOrTiltSeries>27</numImagesOrTiltSeries>
        <framesPerImage>14</framesPerImage>
        <voxelType>UNSIGNED 16 BIT INTEGER</voxelType>
        <dimensions>
            <imageWidth>3710</imageWidth>
            <pixelWidth>2.952</pixelWidth>
            <imageHeight>3838</imageHeight>
            <pixelHeight>2.952</pixelHeight>
        </dimensions>
        <details>Data from Dataset 12: Raw multi-frame movies of tilt series collected on protrusions of control or cofilin knock-down Drosophila S2 cells treated with 2.5 uM Cytochalsin D for 2 hours and 2 uM thapsigargin for 5 hours. The gain reference and defects files are provided within the main folder. Data was collected on a K2 summit camera at a pixel size of 2.952 Å / pixel. Metadata from tilt series acquisition (Mdoc files) is provided inside the Mdoc_files folder.
TS_528 - TS_540 are from cofilin knock-down cells. TS_542 - TS_556 are from control knock-down cells.</details>
        <segmentationList/>
        <micrographsFilePattern></micrographsFilePattern>
        <pickedParticlesFilePattern></pickedParticlesFilePattern>
        <pickedParticlesDirectory></pickedParticlesDirectory>
    </imageSet>
    <imageSet>
        <name>Dataset 12: Binned, deconvolved tomograms of induced protrusions of control and cofilin knock-down Drosophila S2 cells</name>
        <directory>/data/Dataset12_230202/bin4_deconvolved_tomograms</directory>
        <category>reconstructed volumes</category>
        <headerFormat>MRC</headerFormat>
        <dataFormat>MRC</dataFormat>
        <numImagesOrTiltSeries>27</numImagesOrTiltSeries>
        <framesPerImage>14</framesPerImage>
        <voxelType>32 BIT FLOAT</voxelType>
        <dimensions>
            <imageWidth>960</imageWidth>
            <pixelWidth>11.8</pixelWidth>
            <imageHeight>928</imageHeight>
            <pixelHeight>11.8</pixelHeight>
        </dimensions>
        <details>Dataset 12: Tomograms binned by 4 (11.8 Å/ pixel), reconstructed and deconvolved in WARP.
TS_528 - TS_540 are from cofilin knock-down cells. TS_542 - TS_556 are from control knock-down cells.</details>
        <segmentationList/>
        <micrographsFilePattern></micrographsFilePattern>
        <pickedParticlesFilePattern></pickedParticlesFilePattern>
        <pickedParticlesDirectory></pickedParticlesDirectory>
    </imageSet>
</entry>
