<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-12377" schemaVersion="0.65" public="true">
    <admin>
        <currentStatus>REL</currentStatus>
        <keyDates>
            <depositionDate>2024-09-20</depositionDate>
            <releaseDate>2024-11-06</releaseDate>
            <updateDate>2024-11-06</updateDate>
        </keyDates>
        <title>Array Tomography of zebrafish axillary lymphoid organ - an external, experimentally accessible immune organ in the zebrafish</title>
        <correspondingAuthor private="true">
            <authorORCID>0000-0001-7982-6494</authorORCID>
            <firstName>Kedar</firstName>
            <lastName>Narayan</lastName>
            <organization type="academic">NCI/FNLCR</organization>
            <street>Line 1 (Optional if campus selected) Line 2 (Optional)</street>
            <townOrCity>Frederick</townOrCity>
            <stateOrProvince>MD</stateOrProvince>
            <country>United States</country>
            <postOrZipCode>21701</postOrZipCode>
        </correspondingAuthor>
        <principalInvestigator private="true">
            <authorORCID>0000-0001-7982-6494</authorORCID>
            <firstName>Kedar</firstName>
            <lastName>Narayan</lastName>
            <organization type="academic">NCI/FNLCR</organization>
            <street>Line 1 (Optional if campus selected) Line 2 (Optional)</street>
            <townOrCity>Frederick</townOrCity>
            <stateOrProvince>MD</stateOrProvince>
            <country>United States</country>
            <postOrZipCode>21701</postOrZipCode>
        </principalInvestigator>
        <principalInvestigator private="true">
            <authorORCID>0000-0003-4136-4962</authorORCID>
            <firstName>Brant</firstName>
            <middleName>M</middleName>
            <lastName>Weinstein</lastName>
            <organization type="academic">Eunice Kennedy Shriver National Institute of Child Health and Human Development (NICHD)</organization>
            <street>6 Center Dr</street>
            <townOrCity>Bethesda</townOrCity>
            <stateOrProvince>MD</stateOrProvince>
            <country>United States</country>
            <postOrZipCode>20892</postOrZipCode>
        </principalInvestigator>
        <authorsList>
            <author authorORCID="0000-0002-2845-9708">Castranova D</author>
            <author authorORCID="0009-0009-2642-5393">Dell CW</author>
            <author authorORCID="0000-0001-7982-6494">Narayan K</author>
            <author authorORCID="0000-0003-4136-4962">Weinstein BM</author>
        </authorsList>
        <grantSupport>
            <grantReference>
                <fundingBody></fundingBody>
                <code></code>
                <country></country>
            </grantReference>
        </grantSupport>
        <datasetSize units="GB">11.4</datasetSize>
        <entryDOI>10.6019/EMPIAR-12377</entryDOI>
        <experimentType>ATUM-SEM</experimentType>
        <scale>tissue</scale>
    </admin>
    <crossReferences>
        <citationList>
            <universalCitation>
                <journalCitation published="true" preprint="true">
                    <author authorORCID="0000-0002-2845-9708" order="1">Castranova D</author>
                    <author order="2">Kenton MI</author>
                    <author order="3">Kraus A</author>
                    <author authorORCID="0009-0009-2642-5393" order="4">Dell CW</author>
                    <author order="5">Park JS</author>
                    <author order="6">Galanternik MV</author>
                    <author order="7">Park G</author>
                    <author order="8">Lumbantobing DN</author>
                    <author order="9">Dye L</author>
                    <author order="10">Marvel M</author>
                    <author order="11">Iben J</author>
                    <author order="12">Taimatsu K</author>
                    <author order="13">Pham V</author>
                    <author order="14">Willms RJ</author>
                    <author order="15">Blevens L</author>
                    <author order="16">Robertson TF</author>
                    <author order="17">Hou Y</author>
                    <author order="18">Huttenlocher A</author>
                    <author order="19">Foley E</author>
                    <author order="20">Parenti LR</author>
                    <author order="21">Frazer JK</author>
                    <author authorORCID="0000-0001-7982-6494" order="22">Narayan K</author>
                    <author authorORCID="0000-0003-4136-4962" order="23">Weinstein BM</author>
                    <title>The axillary lymphoid organ - an external, experimentally accessible immune organ in the zebrafish</title>
                    <journal>bioRxiv</journal>
                    <journalAbbreviation></journalAbbreviation>
                    <country></country>
                    <year>2024</year>
                    <externalReferences type="doi">10.1101/2024.07.25.605139</externalReferences>
                </journalCitation>
            </universalCitation>
        </citationList>
    </crossReferences>
    <imageSet>
        <name>Aligned and contrast inverted array tomography images of heavy-metal stained, resin-embedded club cells from a zebrafish lobe</name>
        <directory>/data/Zebrafish_Lobe/Zebrafish_Lobe_Selected_Cells/ClubCell</directory>
        <category>micrographs - single frame</category>
        <headerFormat>TIFF</headerFormat>
        <dataFormat>TIFF</dataFormat>
        <numImagesOrTiltSeries>201</numImagesOrTiltSeries>
        <framesPerImage>1</framesPerImage>
        <voxelType>UNSIGNED BYTE</voxelType>
        <dimensions>
            <imageWidth>3868</imageWidth>
            <pixelWidth>100.0</pixelWidth>
            <imageHeight>2732</imageHeight>
            <pixelHeight>100.0</pixelHeight>
        </dimensions>
        <details>60 nm z sectioning</details>
        <segmentationList/>
        <micrographsFilePattern>data/Zebrafish_Lobe/Zebrafish_Lobe_Selected_Cells/ClubCell/Weinstein_Lobe_ClubCell*.tif</micrographsFilePattern>
        <pickedParticlesFilePattern></pickedParticlesFilePattern>
        <pickedParticlesDirectory></pickedParticlesDirectory>
    </imageSet>
    <imageSet>
        <name>Aligned and contrast inverted array tomography images of heavy-metal stained, resin-embedded immune cells from a zebrafish lobe</name>
        <directory>/data/Zebrafish_Lobe/Zebrafish_Lobe_Selected_Cells/ImmuneCell</directory>
        <category>micrographs - single frame</category>
        <headerFormat>TIFF</headerFormat>
        <dataFormat>TIFF</dataFormat>
        <numImagesOrTiltSeries>169</numImagesOrTiltSeries>
        <framesPerImage>1</framesPerImage>
        <voxelType>UNSIGNED BYTE</voxelType>
        <dimensions>
            <imageWidth>2250</imageWidth>
            <pixelWidth>100.0</pixelWidth>
            <imageHeight>2256</imageHeight>
            <pixelHeight>100.0</pixelHeight>
        </dimensions>
        <details>60 nm z sectioning</details>
        <segmentationList/>
        <micrographsFilePattern></micrographsFilePattern>
        <pickedParticlesFilePattern></pickedParticlesFilePattern>
        <pickedParticlesDirectory></pickedParticlesDirectory>
    </imageSet>
    <imageSet>
        <name>Aligned and contrast inverted array tomography images of heavy-metal stained, resin-embedded Merkel cells from a zebrafish lobe</name>
        <directory>/data/Zebrafish_Lobe/Zebrafish_Lobe_Selected_Cells/MerkelCell</directory>
        <category>micrographs - single frame</category>
        <headerFormat>TIFF</headerFormat>
        <dataFormat>TIFF</dataFormat>
        <numImagesOrTiltSeries>81</numImagesOrTiltSeries>
        <framesPerImage>1</framesPerImage>
        <voxelType>UNSIGNED BYTE</voxelType>
        <dimensions>
            <imageWidth>1750</imageWidth>
            <pixelWidth>100.0</pixelWidth>
            <imageHeight>1376</imageHeight>
            <pixelHeight>100.0</pixelHeight>
        </dimensions>
        <details>60 nm z sectioning</details>
        <segmentationList/>
        <micrographsFilePattern></micrographsFilePattern>
        <pickedParticlesFilePattern></pickedParticlesFilePattern>
        <pickedParticlesDirectory></pickedParticlesDirectory>
    </imageSet>
    <imageSet>
        <name>Aligned and contrast inverted array tomography images of heavy-metal stained, resin-embedded solitary chemosensory cells (SCC) type 1 from a zebrafish lobe</name>
        <directory>/data/Zebrafish_Lobe/Zebrafish_Lobe_Selected_Cells/SCC_01</directory>
        <category>micrographs - single frame</category>
        <headerFormat>TIFF</headerFormat>
        <dataFormat>TIFF</dataFormat>
        <numImagesOrTiltSeries>111</numImagesOrTiltSeries>
        <framesPerImage>1</framesPerImage>
        <voxelType>UNSIGNED BYTE</voxelType>
        <dimensions>
            <imageWidth>1654</imageWidth>
            <pixelWidth>100.0</pixelWidth>
            <imageHeight>1443</imageHeight>
            <pixelHeight>100.0</pixelHeight>
        </dimensions>
        <details>60 nm z sectioning</details>
        <segmentationList/>
        <micrographsFilePattern></micrographsFilePattern>
        <pickedParticlesFilePattern></pickedParticlesFilePattern>
        <pickedParticlesDirectory></pickedParticlesDirectory>
    </imageSet>
    <imageSet>
        <name>Aligned and contrast inverted array tomography images of heavy-metal stained, resin-embedded solitary chemosensory cells type 2 (SCC2) from a zebrafish lobe</name>
        <directory>/data/Zebrafish_Lobe/Zebrafish_Lobe_Selected_Cells/SCC_02</directory>
        <category>micrographs - single frame</category>
        <headerFormat>TIFF</headerFormat>
        <dataFormat>TIFF</dataFormat>
        <numImagesOrTiltSeries>105</numImagesOrTiltSeries>
        <framesPerImage>1</framesPerImage>
        <voxelType>UNSIGNED BYTE</voxelType>
        <dimensions>
            <imageWidth>1965</imageWidth>
            <pixelWidth>100.0</pixelWidth>
            <imageHeight>1461</imageHeight>
            <pixelHeight>100.0</pixelHeight>
        </dimensions>
        <details>60 nm z sectioning</details>
        <segmentationList/>
        <micrographsFilePattern></micrographsFilePattern>
        <pickedParticlesFilePattern></pickedParticlesFilePattern>
        <pickedParticlesDirectory></pickedParticlesDirectory>
    </imageSet>
    <imageSet>
        <name>Aligned and contrast inverted array tomography images of heavy-metal stained, resin-embedded Goblet cells from a zebrafish lobe</name>
        <directory>/data/Zebrafish_Lobe/Zebrafish_Lobe_Selected_Cells/SCC_Goblet</directory>
        <category>micrographs - single frame</category>
        <headerFormat>TIFF</headerFormat>
        <dataFormat>TIFF</dataFormat>
        <numImagesOrTiltSeries>169</numImagesOrTiltSeries>
        <framesPerImage>1</framesPerImage>
        <voxelType>UNSIGNED BYTE</voxelType>
        <dimensions>
            <imageWidth>5360</imageWidth>
            <pixelWidth>100.0</pixelWidth>
            <imageHeight>1508</imageHeight>
            <pixelHeight>100.0</pixelHeight>
        </dimensions>
        <details>60 nm z sectioning</details>
        <segmentationList/>
        <micrographsFilePattern></micrographsFilePattern>
        <pickedParticlesFilePattern></pickedParticlesFilePattern>
        <pickedParticlesDirectory></pickedParticlesDirectory>
    </imageSet>
    <imageSet>
        <name>Aligned and contrast inverted array tomography stack overview of zebrafish lobe</name>
        <directory>/data/Zebrafish_Lobe/Zebrafish_Overview</directory>
        <category>micrographs - single frame</category>
        <headerFormat>TIFF</headerFormat>
        <dataFormat>TIFF</dataFormat>
        <numImagesOrTiltSeries>169</numImagesOrTiltSeries>
        <framesPerImage>1</framesPerImage>
        <voxelType>UNSIGNED BYTE</voxelType>
        <dimensions>
            <imageWidth>8781</imageWidth>
            <pixelWidth>250.0</pixelWidth>
            <imageHeight>4770</imageHeight>
            <pixelHeight>250.0</pixelHeight>
        </dimensions>
        <details>Z sectioning at 60 nm and imaged at 25 nm xy pixel sampling</details>
        <segmentationList/>
        <micrographsFilePattern></micrographsFilePattern>
        <pickedParticlesFilePattern></pickedParticlesFilePattern>
        <pickedParticlesDirectory></pickedParticlesDirectory>
    </imageSet>
</entry>
