cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6075/j0gf0sn9
title: CIL:9698, Coleps hirtus, eukaryotic cell, Eukaryotic Protist, Ciliated Protist. In Cell Image Library

description: Preparation: glutaraldehyde fixed tissue; osmium tetroxide fixed tissue; tissue in epoxy resin embedment
Relation to intact cell: microtome-sectioned tissue
Item type: transmission electron microscopy (TEM); illumination by electrons
Imaging mode: detection of electrons; film
Parameter imaged: electron density
Source of contrast: stain with broad specificity
Visualization methods: stain with broad specificity; osmium tetroxide; uranyl salt; lead salt
Processing history: recorded image; film; Print from negative scanned to Photoshop.
Data qualification: Processed;spatialmeasurements
description: Image of the typical cytoplasm of Coleps hirtus. The cytosol contains rough ER, mitochondria with tubular cristae, peroxisomes, early endosomes, and bacterial endosymbionts. Small and large extrusomes are also present. The bacteria are contained in vacuoles bearing ribosomes on their cytosolic side. Elements of the outer cortex: alveoli, plasma membrane, inner alveolar membrane, outer alveolar membrane are evident as well as the Golgi complex. Standard glutaraldehyde fixation followed by osmium tetroxide, dehydrated in alcohol and embedded in an epoxy resin. Microtome sections prepared at approximately 75nm thickness. TEM taken on 5/23/69 by R. Allen with Philips 300 operating at 60kV. Neg. 14,800X. Bar = 0.5µm. A print of the negative was scanned and processed in Photoshop. This image is best used for qualitative analysis. A high resolution image (CIL:2881) is available for quantitative analysis. 

Additional information available at (http://www5.pbrc.hawaii.edu/allen/).
DOI: 10.6075/j0gh9h3x
title: CIL:9711, Coleps hirtus, eukaryotic cell, Eukaryotic Protist, Ciliated Protist. In Cell Image Library

description: Preparation: glutaraldehyde fixed tissue; osmium tetroxide fixed tissue; tissue in epoxy resin embedment
Relation to intact cell: microtome-sectioned tissue
Item type: transmission electron microscopy (TEM); illumination by electrons
Imaging mode: detection of electrons; film
Parameter imaged: electron density
Source of contrast: stain with broad specificity
Visualization methods: stain with broad specificity; osmium tetroxide; uranyl salt; lead salt
Processing history: recorded image; film; Print from negative scanned to Photoshop.
Data qualification: Processed;spatialmeasurements
description: A longitudinal section of an oral basal body and cilium with the attachment of a bundle of microtubular filaments and a rod that covers the proximal end of the basal body. A layer of filaments underlies the corrugated lips and lamellae extend from these lips. The oblique section through the bundle of microtubules exposes the periodic appearance of the bundle. Parasomal sacs, discoidal vesicles, mucocysts, early endosomes, and toxicysts are seen in this cortical section. Standard glutaraldehyde fixation followed by osmium tetroxide, dehydrated in alcohol and embedded in an epoxy resin. Microtome sections prepared at approximately 75nm thickness. TEM taken on 5/28/69 by R. Allen with Philips 300. Neg. 14,800X. Bar = 0.5µm. A print of the negative was scanned and processed in Photoshop. This image is best used for qualitative analysis. A high resolution image (CIL:2872) is available for quantitative analysis.
Additional information available at (http://www5.pbrc.hawaii.edu/allen/).
DOI: 10.6075/j0sj1jtv
title: CIL:9714, Coleps hirtus, eukaryotic cell, Eukaryotic Protist, Ciliated Protist. In Cell Image Library

description: Preparation: glutaraldehyde fixed tissue; osmium tetroxide fixed tissue; tissue in epoxy resin embedment
Relation to intact cell: microtome-sectioned tissue
Item type: transmission electron microscopy (TEM); illumination by electrons
Imaging mode: detection of electrons; film
Parameter imaged: electron density
Source of contrast: stain with broad specificity; differences in adsorption or binding of stain
Visualization methods: stain with broad specificity; osmium tetroxide; uranyl salt; lead salt
Processing history: recorded image; film; Print from negative scanned for Photoshop.
Data qualification: Processed;spatialmeasurements
description: The material was prepared by standard glutaraldehyde fixation followed by osmium tetroxide, dehydrated in alcohol and embedded in an epoxy resin. Microtome sections prepared at approximately 75nm thickness. TEM taken on 5/23/69 by R. Allen with Philips 300 operating at 60kV. Neg. 7,650X. The raw film was scanned with a Nikon Coolscan 9000ED. This high resolution image is suitable for quantitative analysis. Additional information available at (http://www5.pbrc.hawaii.edu/allen/).
description: High resolution image of the macronucleus of Coleps hirtus. Heterochromatin and nucleoli are seen as smaller and larger stained bodies, respectively, in the macronucleus. Many nuclear pores exist in the nuclear envelope.
DOI: 10.6075/j0gq6wwq
title: CIL:9713, Coleps hirtus, eukaryotic cell, Eukaryotic Protist, Ciliated Protist. In Cell Image Library

description: Preparation: glutaraldehyde fixed tissue; osmium tetroxide fixed tissue; tissue in epoxy resin embedment
Relation to intact cell: microtome-sectioned tissue
Item type: transmission electron microscopy (TEM); illumination by electrons
Imaging mode: detection of electrons; film
Parameter imaged: electron density
Source of contrast: stain with broad specificity
Visualization methods: stain with broad specificity; osmium tetroxide; uranyl salt; lead salt
Processing history: recorded image; film; Print from negative scanned for Photoshop
Data qualification: Processed;spatialmeasurements
description: Bundle of microtubules supporting the oral apparatus of Coleps. This micrograph shows the detail of microtubular cross-bridging within one of these rods. Microfibrillar bridges are located at 22nm intervals within the hexagonally packed microtubules. Standard glutaraldehyde fixation followed by osmium tetroxide, dehydrated in alcohol and embedded in an epoxy resin. Microtome sections prepared at approximately 75nm thickness. TEM taken on 5/29/69 by R. Allen with Philips 300 operating at 60kV. Neg. 63,750X. A print of the negative was scanned and processed in Photoshop. This image is best used for qualitative analysis. A high resolution image (CIL:2882) is available for quantitative analysis.

Additional information available at (http://www5.pbrc.hawaii.edu/allen/).
DOI: 10.6075/j0t152s8
title: CIL:9718, Coleps hirtus, eukaryotic cell, Eukaryotic Protist, Ciliated Protist. In Cell Image Library

description: Longitudinal section of somatic cilium showing the axoneme, basal body, and attached fibrous and microtubular elements. Standard glutaraldehyde fixation followed by osmium tetroxide, dehydrated in alcohol and embedded in an epoxy resin. Microtome sections prepared at approximately 75nm thickness. TEM taken on 5/24/69 by R. Allen with Philips 300 operating at 60kV. Neg. 18,500X. Bar = 0.5µm. A print of the negative was scanned and processed in Photoshop. This image is best used for qualitative analysis. A high resolution image (CIL:2868) is available for quantitative analysis. Additional information is available at (http://www5.pbrc.hawaii.edu/allen/).
description: Preparation: glutaraldehyde fixed tissue; osmium tetroxide fixed tissue; tissue in epoxy resin embedment
Relation to intact cell: microtome-sectioned tissue
Item type: transmission electron microscopy (TEM); illumination by electrons
Imaging mode: detection of electrons; film
Parameter imaged: electron density
Source of contrast: stain with broad specificity
Visualization methods: stain with broad specificity; osmium tetroxide; uranyl salt; lead salt
Processing history: recorded image; film; Print from negative scanned for Photoshop.
Data qualification: Processed;spatialmeasurements
DOI: 10.6075/j0p55mpp
title: CIL:9710, Coleps hirtus, eukaryotic cell, Eukaryotic Protist, Ciliated Protist. In Cell Image Library

description: Bundles of microtubules which compose rods that exhibit periodicity along their individual microtubules. Discoidal vesicles seem to be bound to the rod surfaces. The bundles of filaments penetrate into the food vacuole forming a zone from the bases of the basal bodies. Symbiotic bacterium, mitochondrion, and mucocysts are seen. Standard glutaraldehyde fixation followed by osmium tetroxide, dehydrated in alcohol and embedded in an epoxy resin. Microtome sections prepared at approximately 75nm thickness. TEM taken on 5/22/69 by R. Allen with Philips 300. Neg. 14,800X. Bar = 0.5µm. A print of the negative was scanned and processed in Photoshop. This image is best used for qualitative analysis. A high resolution image (CIL:2865) is available for quantitative analysis.

Additional information available at (http://www5.pbrc.hawaii.edu/allen/).
description: Preparation: glutaraldehyde fixed tissue; osmium tetroxide fixed tissue; tissue in epoxy resin embedment
Relation to intact cell: microtome-sectioned tissue
Item type: transmission electron microscopy (TEM); illumination by electrons
Imaging mode: detection of electrons; film
Parameter imaged: electron density
Source of contrast: stain with broad specificity
Visualization methods: stain with broad specificity; osmium tetroxide; uranyl salt; lead salt
Processing history: recorded image; film; Print from negative scanned to Photoshop.
Data qualification: Processed;spatialmeasurements
DOI: 10.6075/j0668cbf
title: CIL:9715, Coleps hirtus, eukaryotic cell, Eukaryotic Protist, Ciliated Protist. In Cell Image Library

description: Preparation: glutaraldehyde fixed tissue; osmium tetroxide fixed tissue; tissue in epoxy resin embedment
Relation to intact cell: microtome-sectioned tissue
Item type: transmission electron microscopy (TEM); illumination by electrons
Imaging mode: detection of electrons; film
Parameter imaged: electron density
Source of contrast: stain with broad specificity
Visualization methods: stain with broad specificity; osmium tetroxide; uranyl salt; lead salt
Processing history: recorded image; film; Print from negative scanned for Photoshop.
Data qualification: Processed;spatialmeasurements
description: This micrograph may show important features involved in calcareous plate formation within the alveoli that underlie the plasma membrane in Coleps. Densities are seen on the inner alveolar membrane at its corners with septa. These densities are not known at this time in other ciliates and may be involved in calcareous platelet formation within the alveoli or in stabilizing the surface shape. Filamentous material fills the cytosolic space between two densities. Rough endoplasmic reticulum bears prominent ribosomes. Standard glutaraldehyde fixation followed by osmium tetroxide, dehydrated in alcohol and embedded in an epoxy resin. Microtome sections prepared at approximately 75nm thickness. TEM taken on 3/4/69 by R. Allen with Philips 300 operating at 60kV. Neg. 39,900X. Bar = 0.5µm. A print of the negative was scanned and processed in Photoshop. This image is best used for qualitative analysis. A high resolution image (CIL:9254) is available for quantitative analysis.

Additional information available at (http://www5.pbrc.hawaii.edu/allen/).
DOI: 10.6075/j0ft8k6h
title: CIL:9706, Euplotes sp., cell by organism, eukaryotic cell, Eukaryotic Protist, Ciliated Protist. In Cell Image Library

description: Preparation: glutaraldehyde fixed tissue; osmium tetroxide fixed tissue; tissue in epoxy resin embedment
Relation to intact cell: microtome-sectioned tissue
Item type: transmission electron microscopy (TEM); illumination by electrons
Imaging mode: detection of electrons; film
Parameter imaged: electron density
Source of contrast: stain with broad specificity
Visualization methods: stain with broad specificity; osmium tetroxide; uranyl salt; lead salt
Processing history: recorded image; film; unprocessed raw data
Data qualification: Raw;spatialmeasurements;intensitiesquantitation
description: A high resolution image of the transition from basal bodies to cilia within a portion of one of the oral membranelles of Euplotes. Parasomal sacs occur between the rows of basal bodies although these endocytic ports are not as evident in Euplotes as in other ciliates. Standard glutaraldehyde fixation followed by osmium tetroxide, dehydrated in alcohol and embedded in an epoxy resin. Microtome sections prepared at approximately 75nm thickness. TEM taken on 7/29/67 by R. Allen with Philips 200. Neg. 28,000X. The raw negative was scanned with an Epson Perfection V750 Pro. This image is best used for quantitative analysis. Additional information is available at (http://www5.pbrc.hawaii.edu/allen/).
DOI: 10.6075/j0pc31g8
title: CIL:9808, Opercularia [NCBITaxon:168247], Opercularia coarctata, cell by organism, eukaryotic cell, Eukaryotic Protist, Ciliated Protist. In Cell Image Library

description: Preparation: glutaraldehyde fixed tissue; osmium tetroxide fixed tissue; tissue in epoxy resin embedment; microtome-sectioned tissue
Relation to intact cell: microtome-sectioned tissue
Item type: transmission electron microscopy (TEM); illumination by electrons
Imaging mode: detection of electrons; film
Parameter imaged: electron density
Source of contrast: stain with broad specificity
Visualization methods: stain with broad specificity; osmium tetroxide; uranyl salt; lead salt
Processing history: recorded image; film; Print from negative scanned for Photoshop
Data qualification: Processed;spatialmeasurements
description: Opercularia coarctata. Transmission electron micrograph of contracted cell body. This ciliate does not have rows of basal body/cilia over its whole surface but has cilia in the oral region and in a trochal band area. The pellicle is sculpted into ridges and grooves that circle the body. A layer of endoplasmic reticulum lies under the pellicle next to a layer of myonemal fibers. The macronucleus, contractile vacuole, mitochondria, and peristomeare evident in this view. TEM taken on 6/12/69 by R. Allen with Philips 300 operating at 60kV. Neg. 4,270X. Bar = 1µm.
description: Standard glutaraldehyde fixation followed by osmium tetroxide, dehydrated in alcohol and embedded in an epoxy resin. Microtome sections prepared at approximately 75nm thickness. A print of the negative was scanned and processed in Photoshop. This image is suitable for qualitative analysis. There is a high resolution version of this image in the library (CIL:39193) which is available for quantitative analysis. Additional information available at (http://www5.pbrc.hawaii.edu/allen/).
DOI: 10.6075/j008641k
title: CIL:9845, Paramecium tetraurelia, cell by organism, eukaryotic cell, Eukaryotic Protist, Ciliated Protist. In Cell Image Library

description: Surface pattern of P. tetraurelia in a region with two basal bodies in each cortical unit. This is a thin-frozen section labeled with immunogold showing the location of b-tubulin. The gold lies over the microtubules of the x-sectioned basal bodies and ciliary axonemes. It also labels tangentially sectioned transverse and postciliary microtubules. Neither the infraciliary lattice, the less obvious striated bands or the kinetodesmal fibers are labeled with anti-b-tubulin. TEM taken on 7/8/96 by R. Allen with Zeiss 10A operating at 80kV. Neg. 12,000X. Bar = 0.5µm. Cells were lightly fixed with 0.25% glutaraldehyde and infiltrated with 2.3M sucrose before being frozen in liquid nitrogen and thin sectioned at a temperature of –100°C at approximately 75nm thickness. Frozen sections from these preparations were then thawed, washed, and exposed to a monoclonal primary antibody that was raised in mice or rabbit/goat and to colloidal gold-complexed goat-anti-mouse/rabbit secondary antibodies. Further details of preparation are detailed in Methods Cell Biol. 2010;96:143-73. The negative was printed to paper and the image was scanned to Photoshop. This digitized image is available for qualitative analysis. An unprocessed, high resolution version of this image (CIL:1312) is in the library and available for quantitative analysis. Additional information available at (http://www5.pbrc.hawaii.edu/allen/).
description: Preparation: glutaraldehyde fixed tissue; tissue in vitreous ice embedment; microtome-sectioned tissue; monoclonal antibody
Relation to intact cell: microtome-sectioned tissue
Item type: transmission electron microscopy (TEM); illumination by electrons
Imaging mode: detection of electrons; film
Parameter imaged: electron density
Source of contrast: intrinsic mass distribution; stain with broad specificity
Visualization methods: stain with broad specificity; uranyl salt; gold
Processing history: recorded image; film; Print from negative scanned for Photoshop.
Data qualification: Processed
DOI: 10.6075/j0wm1chc
title: CIL:9807, Euplotes sp., cell by organism, eukaryotic cell, Eukaryotic Protist, Ciliated Protist. In Cell Image Library

description: A high resolution image and rare micrograph of the contractile vacuole and intact contractile vacuole membrane of Euplotes. Close examination at high magnification reveals the organization of microtubules lining the pore itself. The contractile vacuole is to the upper left on this micrograph; the exterior of the ciliate is to the lower right. Standard glutaraldehyde fixation followed by osmium tetroxide, dehydrated in alcohol and embedded in an epoxy resin. Microtome sections prepared at approximately 75nm thickness. TEM taken on 7/29/67 by R. Allen with Philips 200 operating at 60kV. Neg. 9,000X. The raw negative was scanned with an Epson Perfection V750 Pro. This image is best used for quantitative analysis. Additional information is available at (http://www5.pbrc.hawaii.edu/allen/).
description: Preparation: glutaraldehyde fixed tissue; osmium tetroxide fixed tissue; tissue in epoxy resin embedment
Relation to intact cell: microtome-sectioned tissue
Item type: transmission electron microscopy (TEM); illumination by electrons
Imaging mode: detection of electrons; film
Parameter imaged: electron density
Source of contrast: stain with broad specificity
Visualization methods: stain with broad specificity; osmium tetroxide; uranyl salt; lead salt
Processing history: recorded image; film; unprocessed raw data
Data qualification: Raw;spatialmeasurements;intensitiesquantitation
DOI: 10.6075/j02n50vq
title: CIL:49953, Primary human small airway epithelial cells immortalized with telomerase. In Cell Image Library

description: Primary human small airway epithelial cells in mitotic metaphase state were fixed with 2.5% glutaraldehyde, 5 mM CaCl<sub>2</sub> in 0.1 M sodium cacodylate buffer (pH 7.4). Cells were stained with 10 µM DRAQ5, and photo-oxidized at 620 ± 30 nm for 5 minutes. Cells were post-fixed with 2% osmium tetroxide, 2 mM CaCl<sub>2</sub>, 1.5% potassium ferrocyanide in 0.15 M sodium cacodylate buffer (pH 7.4). Samples were ethanol dehydrated, embedded in Durcupan epoxy resin and sectioned to 250 nm thickness and mounted on copper slot grid. 5 nm and 10 nm colloidal gold particles were deposited on the grid as fiducial markers. 8-tilt EM tomography was collected on a 300 kV FEI Titan Krios using a 4K by 4K Gatan Ultrascan CCD camera at 1 degree increment for each tilt series from -60° to +60°. The entire set of EMT images was aligned and reconstructed using the Transform-based Tracking, Bundle adjustment, and Reconstruction (TXBR) package. The data has a voxel size of 1.28 nm.
description: Preparation: Glutaraldehyde fixed cells, photo-oxidation of DRAQ5 in the presence of DAB solution to induce DAB polymerization and subsequent staining with osmium tetroxide
Relation to intact cell: semi-thin section ~250 nm
Item type: recorded image
Imaging mode: 8-tilt EM tomography
Parameter imaged: electron density
Source of contrast: Osmium tetroxide staining of DAB polymers catalyzed by photo-oxidation of DRAQ5 stained cells in the presence of DAB solution
description: Multi-tilt EM tomogram of primary human small airway epithelial cell (SAEC) in mitotic metaphase state. The tomogram refers to the SAEC in figure S13 of the published manuscript: 
http://science.sciencemag.org/content/357/6349/eaag0025
DOI: 10.6075/j0dn43mj
title: CIL:49802, Human bone osteosarcoma cells. In Cell Image Library

description: A human bone osteosarcoma cell in anaphase mitotic state was fixed with 2.5% glutaraldehyde, 5 mM CaCl<sub>2</sub> in 0.1 M sodium cacodylate buffer (pH 7.4). Cells were stained with 10 µM DRAQ5, and photo-oxidized at 620 ± 30 nm for 3 minutes. Cells were post-fixed with 2% osmium tetroxide, 2 mM CaCl<sub>2</sub>, 1.5% potassium ferrocyanide in 0.15 M sodium cacodylate buffer (pH 7.4). Samples were ethanol dehydrated, embedded in Durcupan epoxy resin and sectioned to 250 nm thickness and mounted on copper slot grid. 5 nm and 10 nm colloidal gold particles were deposited on the grid as fiducial markers. 8-tilt EM tomography was collected on a 300 kV FEI Titan Krios using a 4K by 4K Gatan Ultrascan CCD camera at 1 degree increment for each tilt series from -60° to +60°. The entire set of EMT images was aligned and reconstructed using the Transform-based Tracking, Bundle adjustment, and Reconstruction (TXBR) package. The data has a voxel size of 1.6 nm.
description: Multi-tilt EM tomogram of a human bone osteosarcoma (U2OS) cell in the mitotic anaphase state. The tomogram refers to the U2OS cell in Figure 6 of the published manuscript: 
http://science.sciencemag.org/content/357/6349/eaag0025
description: Preparation: Glutaraldehyde fixed cells, photo-oxidation of DRAQ5 in the presence of DAB solution to induce DAB polymerization and subsequent staining with osmium tetroxide
Relation to intact cell: semi-thin section ~250 nm
Item type: recorded image
Imaging mode: 8-tilt EM tomography
Parameter imaged: electron density
Source of contrast: Osmium tetroxide staining of DAB polymers catalyzed by photo-oxidation of DRAQ5 stained cells in the presence of DAB solution
DOI: 10.6075/j0h993s5
title: CIL:49803, Human bone osteosarcoma cells. In Cell Image Library

description: Multi-tilt EM tomogram of a human bone osteosarcoma (U2OS) cell in the mitotic anaphase state. The tomogram refers to the U2OS cell in Figure 7 of the published manuscript: 
http://science.sciencemag.org/content/357/6349/eaag0025
description: Preparation: Glutaraldehyde fixed cells, photo-oxidation of DRAQ5 in the presence of DAB solution to induce DAB polymerization and subsequent staining with osmium tetroxide
Item type: recorded image
Imaging mode: 8-tilt EM tomography
Parameter imaged: electron density
Source of contrast: Osmium tetroxide staining of DAB polymers catalyzed by photo-oxidation of DRAQ5 stained cells in the presence of DAB solution
description: A human bone osteosarcoma cell in anaphase mitotic state was fixed with 2.5% glutaraldehyde, 5 mM CaCl<sub>2</sub> in 0.1 M sodium cacodylate buffer (pH 7.4). Cells were stained with 10 µM DRAQ5, and photo-oxidized at 620 ± 30 nm for 3 minutes. Cells were post-fixed with 2% osmium tetroxide, 2 mM CaCl<sub>2</sub>, 1.5% potassium ferrocyanide in 0.15 M sodium cacodylate buffer (pH 7.4). Samples were ethanol dehydrated, embedded in Durcupan epoxy resin and sectioned to 250 nm thickness and mounted on copper slot grid. 5 nm and 10 nm colloidal gold particles were deposited on the grid as fiducial markers. 8-tilt EM tomography was collected on a 300 kV FEI Titan Krios using a 4K by 4K Gatan Ultrascan CCD camera at 1 degree increment for each tilt series from -60° to +60°. The entire set of EMT images was aligned and reconstructed using the Transform-based Tracking, Bundle adjustment, and Reconstruction (TXBR) package. The data has a voxel size of 1.28 nm.