cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6075/j0mg7nnw
title: CIL:12630, Homo sapiens, embryonic stem cell. In Cell Image Library

description: Relation to intact cell: dispersed cells in vitro
Item type: recorded image
Imaging mode: bright-field microscopy
Parameter imaged: absorption of illumination
Source of contrast: differences in adsorption or binding of stain
Visualization methods: alkaline phosphatase
description: Human embryonic stem cell colonies that have been stained for alkaline phosphatase (red). Alkaline phosphatase staining is used to show that the colonies are pluripotent. The colonies are growing on a layer of mouse embryonic fibroblasts which help sustain growth and pluripotency of the stem cell colonies.
DOI: 10.6075/j0td9wjc
title: CIL:12628, Mus musculus, oocyte. In Cell Image Library

description: Preparation: formaldehyde fixed tissue
Relation to intact cell: whole mounted tissue
Item type: recorded image
Imaging mode: fluorescence microscopy
Parameter imaged: fluorescence emission
Source of contrast: distribution of a specific protein
Visualization methods: Alexa Fluor 488; primary antibody plus labeled secondary antibody
Processing history: deconvolution
Data qualification: Processed
description: Fluorescent image of a mouse oocyte labeled with an antibody to tubulin, which is shown localized in the cortex of the oocyte. The sample was fixed in paraformaldehyde for subsequent immunolabeling with an antibody to tubulin and a secondly antibody conjugated to Alexa 488, which labels the microtubules green. The oocyte was imaged using a Nikon Eclipse inverted microscope and the original image was deconvoluted using Nikon's Elements software.
DOI: 10.6075/j0wq02xp
title: CIL:12640, Paramecium multimicronucleatum, cell by organism, eukaryotic cell, Eukaryotic Protist, Ciliated Protist. In Cell Image Library

description: A high resolution image of a clump of at least seven small clathrin cages that are probably connected to an early endosome (below the fracture plane). The morphology of these cages shows a tighter packing than the larger clathrin cages at the parasomal sacs. TEM taken on 7/29/88 by C. Schroeder with Zeiss 10A operating at 80kV. Neg. 31,500X. The raw film was scanned with an Epson Perfection V750 Pro. This image is best used for quantitative analysis. Additional information available at (http://www5.pbrc.hawaii.edu/allen/).
description: Preparation: freeze_fracture/freeze_etch
Relation to intact cell: shadowing and plating; freeze_fracture/freeze_etch; isolated subcellular component
Item type: transmission electron microscopy (TEM); illumination by electrons
Imaging mode: electron density
Parameter imaged: elastic scattering of electrons; electron density; elevation
Source of contrast: differences in deposition of metal shadow
Visualization methods: transmission electron microscopy (TEM)
Processing history: freeze_fracture/freeze_etch; shadowing and plating; recorded image; film; unprocessed raw data
Data qualification: Raw;spatialmeasurements
DOI: 10.6075/j0x63m7m
title: CIL:1264, Caenorhabditis elegans, muscle cell. In Cell Image Library

description: Relation to intact cell: whole mounted tissue
Item type: recorded image
Imaging mode: fluorescence microscopy
Parameter imaged: fluorescence emission
Source of contrast: distribution of epitope
Visualization methods: phalloidin
Processing history: unprocessed raw data
description: C. elegans muscle age is a data set of fluorescence 20X microscopy images of C. elegans nematodes stained with phalloidin to visualize actin in muscles at different ages (1,2,4, and 8). Note that the data sets for each age can be found by searching for a featured image from each set: CIL 1005, 1057, 1105, and 1265, respectively.
description: The purpose of the dataset C. elegans muscle aging is to deduce the age of the nemathode based on images of muscles. Images of C. elegans were taken at different chronological ages. This image is part of the day 4 data set. Note that the morphological and chronological ages are not fully correlated due to the variability among individuals even though the individuals are genetically identical. The source for the dataset is Laboratory of Genetics/NIA/NIH.
DOI: 10.6075/j0vh5mjw
title: CIL:12637, Paramecium multimicronucleatum, cell by organism, eukaryotic cell, Eukaryotic Protist, Ciliated Protist. In Cell Image Library

description: Preparation: freeze_fracture/freeze_etch
Relation to intact cell: shadowing and plating; freeze_fracture/freeze_etch; isolated subcellular component
Item type: transmission electron microscopy (TEM); illumination by electrons
Imaging mode: electron density
Parameter imaged: elastic scattering of electrons; electron density; elevation
Source of contrast: differences in deposition of metal shadow
Visualization methods: transmission electron microscopy (TEM)
Processing history: freeze_fracture/freeze_etch; shadowing and plating; recorded image; film; scanned image
Data qualification: Raw;spatialmeasurements
description: Higher resolution image of the area that shows the clathrin-coated cage near the peniculus and clathrin coated preendosomal and partially coated preendosomal vesicles. Early endosomes like the preendosomal vesicles have smooth E-fracture faces with few IMPs. TEM taken on 7/19/88 by C. Schroeder with Zeiss 10A operating at 80kV. Neg. 31,500X. Adapted with permission from the J. Cell Sci. The raw film was scanned with an Epson Perfection V750 Pro. Additional information available at (http://www5.pbrc.hawaii.edu/allen/).
DOI: 10.6075/j0gf0s7x
title: CIL:12636, Paramecium multimicronucleatum, cell by organism, eukaryotic cell, Eukaryotic Protist, Ciliated Protist. In Cell Image Library

description: Preparation: freeze_fracture/freeze_etch
Relation to intact cell: shadowing and plating; freeze_fracture/freeze_etch; isolated subcellular component
Item type: transmission electron microscopy (TEM); illumination by electrons
Imaging mode: electron density
Parameter imaged: elastic scattering of electrons; electron density; elevation
Source of contrast: differences in deposition of metal shadow
Visualization methods: transmission electron microscopy (TEM)
Processing history: freeze_fracture/freeze_etch; shadowing and plating; recorded image; film; unprocessed raw data
Data qualification: Raw;spatialmeasurements
description: High resolution image of vesicles and early endosomes under the membranelles of the peniculus of the buccal cavity. Cilia and basal bodies are tangentially fractured in this quick-freeze deep-etch preparation. Preendosomal vesicles, clathrin-coated and partially uncoated, that arise from the clathrin-coated ends of parasomal sacs lie nearest the basal body/cilium complexes. Internal to these are the many early endosomes to which the uncoated preendosomal vesicles fuse and from which smaller clathrin-coated vesicles bud off. Blebs protrude from one early endosome. Carrier vesicles of about 100nm in diameter are found internal to the early endosomes. TEM taken on 7/19/88 by C. Schroeder with Zeiss 10A operating at 80kV. Neg. 12,000X. Adapted with permission from J. Cell Sci. The raw film was scanned with an Epson Perfection V750 Pro. This image is best used for quantitative analysis. Additional information available at (http://www5.pbrc.hawaii.edu/allen/).
DOI: 10.6075/j0g15zk7
title: CIL:12646, Insect host: Dalbulus elimatus (Hemiptera, Cicadellidae), epithelial cell, bacteria. In Cell Image Library

description: Preparation: glutaraldehyde fixed tissue; osmium tetroxide fixed tissue; tissue in epoxy resin embedment
Relation to intact cell: sectioned tissue
Item type: recorded image
Imaging mode: transmission electron microscopy (TEM)
Parameter imaged: electron density
Source of contrast: differences in adsorption or binding of stain
Visualization methods: uranyl salt; lead salt
Processing history: unprocessed raw data
description: Epithelial cells (ec) of the midgut. Spiroplasmas are bacteria in the Class Mollicutes that are frequently associated with insects and/or plants. These electron micrographs show symbiotic/ commensal spiroplasma-like organisms (SLOs) in the midgut/ filter chamber of a leafhopper, Dalbulus elimatus. SLOs found in this insect are long and tubular shaped with a tip structure (t). These SLOs (S) were found in great numbers in the gut lumen (lu) frequently associated with gut microvilli, but unlike the plant-pathogenic mollicutes, they did not seem to invade the gut epithelium (ec) or other tissues in their leafhopper hosts. This image is related to Fig. 1 in Arch. Microbiol (2011) 193:35-44
DOI: 10.6075/j04t6h2b
title: CIL:12641, Paramecium multimicronucleatum, cell by organism, eukaryotic cell, Eukaryotic Protist, Ciliated Protist. In Cell Image Library

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
description: High resolution image of a monoclonal antibody raised in mouse to an antigen called C6 found on the surface of Paramecium. As seen in this micrograph the gold labelled antigen heavily labels the ciliary membrane and cell surface. In addition the gold is found in the parasomal sacs, in preendosomal vesicles and in early endosomes. However, there is almost no gold in the small coated evaginations of the early endosome or in the carrier vesicles escaping from the early endosomes. We conclude that this antigen passes no further into the cell and is recycled back to the plasma membrane. This antigen could be a cargo receptor that is cycled between the plasma membrane and the early endosome. The cargo may fall off this receptor in the early endosome and be concentrated in the small coated evaginations as is HRP for transport deeper into the cell. TEM taken on 5/14/91 by R. Allen with Zeiss 10A operating at 80kV. Neg. 12,000X. Adapted with permission from J. Cell Sci. 101:449-461, 1992. 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 outlined in Methods Cell Biol. 2010;96:143-73. The raw film was scanned with an Epson Perfection V750 Pro. This image is best used for quantitative analysis. Additional information available at (http://www5.pbrc.hawaii.edu/allen/).
DOI: 10.6075/j03t9fw3
title: CIL:12645, Insect host: Dalbulus maidis (Hemiptera, Cicadellidae), epithelial cell, bacteria. In Cell Image Library

description: Preparation: formaldehyde fixed tissue; permeabilized tissue
Relation to intact cell: whole mounted tissue
Item type: recorded image
Imaging mode: single-spot confocal microscopy
Parameter imaged: fluorescence emission
Source of contrast: distribution of a specific protein
Visualization methods: Alexa Fluor 633; propidium iodide
Processing history: unprocessed raw data
description: Spiroplasmas are bacteria in the Class Mollicutes that are frequently associated with insects and/or plants. This confocal laser scanning micrographs show aggregates of symbiotic/ commensal spiroplasma-like organisms (SLOs) in the midgut (mg) and filter chamber (fc) of a leafhopper, Dalbulus maidis. Large accumulations of these SLOs (bright red areas, asterisks) were found in the gut lumen, but unlike the plant-pathogenic mollicutes, they did not seem to invade the gut epithelium or other tissues in their insect hosts. This image is related to Fig. 3 in Arch. Microbiol (2011) 193:35-44.
DOI: 10.6075/j0cc0zdm
title: CIL:12657, Danio rerio. In Cell Image Library

description: Scanning EM of a 24 hr (prim-5) Zebrafish embryo, fractured to reveal the neural tube, migrating neural crest cells, the notochord and the somites. Specimens were chemically fixed critically point dried, and sputter coated with gold/palladium. This image is part of a series taken by Bryan Crawford while he was at the University of Washington. They are part of the Zebrafish--The Living Laboratory CD made available by Mark Cooper and described in Methods in Cell Biology Volume 77, 2004, Pages 439-457.
description: Preparation: crosslinking-fixative fixed tissue; critical_point dried specimen
Relation to intact cell: whole mounted tissue
Item type: recorded image
Imaging mode: scanning electron microscopy (SEM)
Parameter imaged: elastic scattering of electrons
Source of contrast: differences in deposition of metal shadow
Visualization methods: shadowing and plating
Processing history: unprocessed raw data
Data qualification: Raw;spatialmeasurements
DOI: 10.6075/j0tx3d60
title: CIL:12257. In Cell Image Library

description: Item type: animation; color graphic
description: This animation shows the process of clathrin-mediated endocytosis of transferrin receptors, focusing on the assembly and disassembly of the clathrin cage. A single triskelion, which is approximately 100nm across at its widest point. Iron-bound transferrin is bound to its receptor on the exterior cell membrane. The transferrin receptor in turn binds to adaptor proteins in the interior of the cell, triggering the formation of a clathrin cage around the bound transferrin receptors. Soon after the vesicle has budded off the membrane, clathrin cage disassembly begins. Disassembly is mediated by HSC70, and its cofactor auxilin. The animation takes place in "real time," as clathrin cages have been observed to assemble in ~ 1 minute and disassemble in a few seconds after budding from the membrane. Endocytosis is the process by which cells are able to internalize membrane and extracellular materials through the formation of a vesicle. The process of membrane budding to form a vesicle is generally mediated by a protein coat, which acts both as a means to deform the membrane and to concentrate specific types of proteins inside the nascent vesicle. Clathrin is a coat protein that has been shown to function in receptor-mediated endocytosis events at the plasma membrane. Celldance 2008, 1st Place Video.
DOI: 10.6075/j0x34wm6
title: CIL:12316, Nassula, 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: Transmission electron micrograph of section through the macronucleus of Nassula sp containing many darkly staining nucleoli.
description: TEM taken on 4/1/69 by R. Allen with Philips 300 operating at 60kV. Neg. 7,650X. Bar = 1µm. A print of the negative was scanned and processed in Photoshop. This image is best used for qualitative analysis. A high resolution image (CIL:7749) is available in the library for quantitative analysis. Standard glutaraldehyde fixation followed by osmium tetroxide, dehydration in alcohol and embedding in epoxy resin. Microtome section thickness approximately 75nm.

Additional information available at (http://www5.pbrc.hawaii.edu/allen/).
DOI: 10.6075/j0j102ch
title: CIL:12101, Colpoda cucullus, cell by organism, eukaryotic cell, Eukaryotic Protist, Ciliated Protist. In Cell Image Library

description: Colpoda is a soil ciliate and this micrograph is characterized by numerous mucocysts and food vacuoles containing bacteria in various stages of digestion. This electron micrograph is near the posterior end of the cell and contains spongiome tubules of the contractile vacuole. Rows of cilia cover the cell and basal body/cilium complexes are present as dikinetids, two complexes in each cortical unit. TEM taken on 5/31/69 by R. Allen with Philips 300 operating at 60kV. Neg. 5,000X. Bar = 1µm. The negative was printed to paper and the image was scanned with a flatbed scanner and the 1µm bar added in Photoshop. This digitized image is available for qualitative analysis. A high resolution image is available in this library (CIL:38831) and can be used for quantitative analysis. Standard glutaraldehyde fixation followed by osmium tetroxide, dehydrated in alcohol and embedded in an epoxy resin. Microtome sections were prepared at approximately 75nm thickness. 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; 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 to Photoshop.
Data qualification: Processed;spatialmeasurements
DOI: 10.6075/j0m044f1
title: CIL:2749, Caenorhabditis elegans. In Cell Image Library

description: The purpose of the dataset C. elegans terminal bulb aging is to deduce the age of the nemathode based on images of the pharynx terminal bulb (part of the eating apparatus). Images of C. elegans were taken at different chronological ages. This image is part of the day 8 data set. Note that the morphological and chronological ages are not fully correlated due to the variability among individuals even though the individuals are genetically identical. The source for the dataset is Laboratory of Genetics/NIA/NIH.
description: Terminal Bulb is a dataset of DIC (differential interference contrast) 20x microscopy images of the pharynx terminal bulb of C. elegans at different ages (0, 2, 4, 6, 8, 10, 12 days). Note that the data sets for each age can be found by searching for a featured image from each set: CIL 1587, 1694, 1905, 2213, 2622, 2544, and 2606, respectively.
description: Relation to intact cell: whole mounted tissue
Item type: recorded image
Imaging mode: differential interference contrast microscopy
Parameter imaged: optical path length gradient
Source of contrast: boundaries between regions with different refractive index
Visualization methods: visualization of contiguous regions
Processing history: unprocessed raw data
DOI: 10.6075/j08s4p5w
title: CIL:1453, Oryctolagus cuniculus, skeletal muscle cell. In Cell Image Library

description: Preparation: glutaraldehyde fixed tissue; freeze_fracture/freeze_etch
Relation to intact cell: isolated subcellular component
Item type: recorded image
Imaging mode: transmission electron microscopy (TEM); wide-field detection; widefield illumination; illumination by electrons; detection of electrons
Parameter imaged: electron density; elevation
Source of contrast: differences in deposition of metal shadow
Visualization methods: shadowing and plating
Processing history: unprocessed raw data
description: Rabbit psoas skeletal muscle fibers were held at constant length and rigor induced by immersion in glycerol. The fibers were quick-frozen by contact with a liquid helium- cooled copper block in a Heuser-type cryopress, and freeze-etched in a Balzers 400 freeze fracture machine. The sample was then rotary-replicated with Pt-C at 24 degrees and visualized in a JEOL 100CX2 transmission electron microscope operated at 100 kev.

Images were recorded on Kodak 4489 film at 75,000x magnification. Films were scanned with a 20 micrometer pixel spacing on a Nikon Coolscan 9000ED scanner.

Stereo pair with CIL:2873.
DOI: 10.6075/j0s75f25
title: CIL:12290, Homo sapiens, epithelial cell. In Cell Image Library

description: MCF-10A epithelial cells were fixed with 1:1 mixture of methanol/acetone (-20° C, 10 min), permeabilized with 0.5% Triton in PBS, and immunostained sequentially with primary, then secondary antibodies and laminin receptor (Cy5, 633 nm laser), laminin receptor α6 (Cy2, 488 nm laser) and laminin receptor α3(rhodamine red-X, 543 nm laser), and observed using a confocal laser-scanning microscope system. For additional details see: J. Cell Biol. 2010. 189(5):901-917
description: To determine the extent to which extracellular matrix proteins colocalize with the microtubule-anchoring factor LL5s (LL5α), MCF-10A epithelial cells were immunostained with antibodies to laminin receptors α3 (green), α6 (blue) and LL5s (red). Analyses suggest that LL5s are colocalized with activated pools of integrins associated with laminin-5. Overall findings from this publication showed that signaling from laminin-integrin associations plays a role in attaching microtubule plus ends to the epithelial basal cell cortex. This image is the original data file for Fig. 3 Panel D-c from J Cell Biol (2010) 189 (5):901-917.
description: Preparation: methanol fixed tissue; permeabilized tissue
Relation to intact cell: dispersed cells in vitro
Item type: recorded image
Imaging mode: confocal microscopy
Parameter imaged: fluorescence emission
Source of contrast: distribution of epitope
Visualization methods: Cy2; Cy5; X-Rhodamine
Data qualification: Raw;spatialmeasurements
DOI: 10.6075/j0dn43ss
title: CIL:12293, Mus musculus, epithelial cell. In Cell Image Library

description: Preparation: formaldehyde fixed tissue
Relation to intact cell: microtome-sectioned tissue
Item type: recorded image
Imaging mode: confocal microscopy
Parameter imaged: fluorescence emission
Source of contrast: distribution of epitope
Visualization methods: Cy2; X-Rhodamine; Cy5
Data qualification: Raw;spatialmeasurements
description: Colocalization of the microtubule anchoring factor LL5α (red) with integrin α6 (blue) and laminin (green) in the epithelium of mouse small intestine. LL5α is localized to the basal cell cortex attached to the laminin BMs. Overall findings from this publication showed that signaling from laminin-integrin associations play a role in attaching microtubule plus ends to the epithelial basal cell cortex. This image is the original data file from Fig. 4D, J Cell Biol (2010) 189 (5):901-917.
description: Small intestine from C57BL6/J strain mice (8 wk of age) was prepared by perfusion fixation, processed as described previously (Nakatani et al., 2004), and immunostained for laminin (Cy2, 488 nm laser), LL5a (rhodamine red-X, 543 nm laser) and integrin a6 (Cy5, 633 nm laser), and observed using a confocal laser-scanning microscope system.