<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-10686" public="true">
    <admin>
        <currentStatus>REL</currentStatus>
        <keyDates>
            <depositionDate>2021-03-31</depositionDate>
            <releaseDate>2021-08-20</releaseDate>
            <updateDate>2021-08-20</updateDate>
        </keyDates>
        <title>Cryo-electron tomography of JCVI-Syn3A (small cell)</title>
        <correspondingAuthor>
            <authorORCID>0000-0001-8228-2133</authorORCID>
            <firstName>Vinson</firstName>
            <lastName>Lam</lastName>
            <organization type="academic">UC San Diego</organization>
            <street>9500 Gilman Dr.</street>
            <townOrCity>La Jolla</townOrCity>
            <stateOrProvince>California</stateOrProvince>
            <country>United States</country>
            <postOrZipCode>92093</postOrZipCode>
        </correspondingAuthor>
        <principalInvestigator>
            <authorORCID>0000-0003-4677-9809</authorORCID>
            <firstName>Elizabeth</firstName>
            <lastName>Villa</lastName>
            <organization type="academic">UC San Diego</organization>
            <street>9500 Gilman Dr.</street>
            <townOrCity>La Jolla</townOrCity>
            <stateOrProvince>CA</stateOrProvince>
            <country>United States</country>
            <postOrZipCode>92093</postOrZipCode>
        </principalInvestigator>
        <authorsList>
            <author authorORCID="0000-0001-8228-2133">Lam V</author>
            <author authorORCID="0000-0003-4677-9809">Villa E</author>
            <author authorORCID="0000-0003-0442-9042">Thornburg ZR</author>
        </authorsList>
        <datasetSize>6.4</datasetSize>
        <entryDOI>10.6019/EMPIAR-10686</entryDOI>
        <experimentType>EMDB</experimentType>
    </admin>
    <crossReferences>
        <relatedEMDBEntries>
            <emdbEntry>EMD-23661</emdbEntry>
        </relatedEMDBEntries>
        <citationList>
            <universalCitation>
                <journalCitation published="true" preprint="false">
                    <author order="1">Gilbert BR</author>
                    <author authorORCID="0000-0003-0442-9042" order="2">Thornburg ZR</author>
                    <author authorORCID="0000-0001-8228-2133" order="3">Lam V</author>
                    <author order="4">Rashid FM</author>
                    <author order="5">Glass JI</author>
                    <author authorORCID="0000-0003-4677-9809" order="6">Villa E</author>
                    <author order="7">Dame RT</author>
                    <author order="8">Luthey-Schulten Z</author>
                    <title>Generating Chromosome Geometries in a Minimal Cell From Cryo-Electron Tomograms and Chromosome Conformation Capture Maps</title>
                    <journal>Frontiers in molecular biosciences</journal>
                    <journalAbbreviation>Front Mol Biosci</journalAbbreviation>
                    <country></country>
                    <volume>8</volume>
                    <year>2021</year>
                    <language>English</language>
                    <externalReferences type="doi">10.3389/fmolb.2021.644133</externalReferences>
                    <externalReferences type="pubmed">34368224</externalReferences>
                </journalCitation>
            </universalCitation>
        </citationList>
    </crossReferences>
    <imageSet>
        <name>Unaligned Tilt-series of JCVI-Syn3A (small cell)</name>
        <directory>/data/stack</directory>
        <category>tilt series</category>
        <headerFormat>MRC</headerFormat>
        <dataFormat>MRC</dataFormat>
        <numImagesOrTiltSeries>1</numImagesOrTiltSeries>
        <framesPerImage>61</framesPerImage>
        <frameRange>
            <frameRangeMin>1</frameRangeMin>
            <frameRangeMax>61</frameRangeMax>
        </frameRange>
        <voxelType>32 BIT FLOAT</voxelType>
        <dimensions>
            <imageWidth>3710</imageWidth>
            <pixelWidth>4.265</pixelWidth>
            <imageHeight>3838</imageHeight>
            <pixelHeight>4.265</pixelHeight>
        </dimensions>
        <details>Tilt-series is dose-weighted and motion-corrected using Warp. The last two frames of each tilt were removed due to excessive motion.</details>
        <segmentationList/>
        <micrographsFilePattern></micrographsFilePattern>
        <pickedParticlesFilePattern></pickedParticlesFilePattern>
        <pickedParticlesDirectory></pickedParticlesDirectory>
    </imageSet>
    <imageSet>
        <name>Multi-frame micrographs of each tilt for tilt-series of JCVI-Syn3A (small cell)</name>
        <directory>/data/frames</directory>
        <category>micrographs - multiframe</category>
        <headerFormat>TIFF</headerFormat>
        <dataFormat>TIFF</dataFormat>
        <numImagesOrTiltSeries>61</numImagesOrTiltSeries>
        <framesPerImage>10</framesPerImage>
        <frameRange>
            <frameRangeMin>1</frameRangeMin>
            <frameRangeMax>10</frameRangeMax>
        </frameRange>
        <voxelType>UNSIGNED 16 BIT INTEGER</voxelType>
        <dimensions>
            <imageWidth>3710</imageWidth>
            <pixelWidth>4.265</pixelWidth>
            <imageHeight>3838</imageHeight>
            <pixelHeight>4.265</pixelHeight>
        </dimensions>
        <details>Dark-subtracted frames from serialEM. Last two frames should be excluded due to excessive motion. Counting mode gain-reference is included in the same directory.</details>
        <segmentationList/>
        <micrographsFilePattern>data/frames/Jan04*.tif</micrographsFilePattern>
        <pickedParticlesFilePattern></pickedParticlesFilePattern>
        <pickedParticlesDirectory></pickedParticlesDirectory>
    </imageSet>
</entry>
