cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6075/j0k073d0
title: CIL:12307, Nassula, cell by organism, eukaryotic cell, Eukaryotic Protist, Ciliated Protist. In Cell Image Library

description: A print of the negative was scanned and processed in Photoshop. This image is best used for qualitative analysis. Standard glutaraldehyde fixation followed by osmium tetroxide, dehydrated in alcohol and embedded in an epoxy resin. Microtome sections prepared at approximately 75nm. There is a high resolution version of this image in the library (CIL:39128) which 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; 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: Cytopharyngeal basket in tangential section is composed of a complex of microtubular rods. The lumen of the basket contains many vesicles called cytopharyngeal vesicles. They may provide membrane for the nascent food vacuole, lysosomal and/or lytic enzymes, or all of these. Another role may be to provide vacuolar type ATPases (proton pumps) to the nascent food vacuole. TEM taken on 3/13/69 by R. Allen with Philips 300 operating at 60kV. Neg. 3,570X. Bar = 2µm.
DOI: 10.6075/j0b27tfn
title: CIL:12322, Halteria grandinella, cell by organism, eukaryotic cell, Eukaryotic Protist, Ciliated Protist. In Cell Image Library

description: This section represents one in a series of serial sections. At this point the two parts of the macronucleus are now connected by a DNA replication band similar to the hypotrichs (e.g. Euplotes). The level of this section is approximately half way through the cell. The buccal cavity is reduced and the cytopharynx with its lamellae next to the paroral kinety is curved. Portions of 4 perioral membranelles are seen as well as a food vacuole. TEM taken on 3/12/71 by R. Allen with Hitachi HU11A operating at 75kV. Neg. 3,800X. Bar = 2µm. Standard glutaraldehyde fixation followed by osmium tetroxide, dehydrated in alcohol and embedded in an epoxy resin. Microtome sections prepared thicker to accommodate the series. Additional information 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 scanned for Photoshop
Data qualification: Processed;spatialmeasurements
DOI: 10.15468/dl.gf4ba9
title: Occurrence Download

description: A dataset containing 4 species occurrences available in GBIF matching the query:
{
 "and" : [
 "GadmGid is CHN.28_1",
 "TaxonKey is Rumex confertus"
 ]
}

 The dataset includes 4 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009244-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6075/j09w0dks
title: CIL:12331, 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; Print from negative scanned for Photoshop.
Data qualification: Processed;spatialmeasurements
description: A grazing section through the dorsal surface of Euplotes showing cross sections of cilia in four of the sparsely ciliated kineties . A layer of mitochondria underlies the pellicle. A replication band of the DNA in the macronucleus is typical of hypotrichs. The basal bodies and cilia of one cirrus are found as well as the contractile vacuole. EM taken on 8/1/67 by R. Allen with Philips 200 operating at 60kV. Neg. 1,800X. Bar = 5µm. 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 best used for qualitative analysis. A high resolution version of this image is in the library (CIL:38868) is available for quantitative analysis. Additional information is available at (http://www5.pbrc.hawaii.edu/allen/).
DOI: 10.6075/j0jq103c
title: CIL:12321, Halteria grandinella, cell by organism, eukaryotic cell, Eukaryotic Protist, Ciliated Protist. In Cell Image Library

description: This group represents a serial series of sections. At the level of this section, the macronucleus and micronucleus are present. The buccal cavity with cilia and the spongiome of CV, membranelles of perioral ciliature, and oral cilia. TEM taken on 3/12/71 by R. Allen with Hitachi HU11A operating at 75kV. Neg. 3,800X. Bar = 2µm. Standard glutaraldehyde fixation followed by osmium tetroxide, dehydrated in alcohol and embedded in an epoxy resin. Microtome sections prepared thicker to accommodate the series. Additional information 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 scanned for Photoshop
Data qualification: Processed;spatialmeasurements
DOI: 10.6075/j0gt5mbw
title: CIL:12304, Didinium nasutum, cell by organism, eukaryotic cell, Eukaryotic Protist, Ciliated Protist. In Cell Image Library

description: Contractile vacuole in the opisthe of a dividing cell. This is presumably the mature CV of the original “mother” cell. Spongiome tubules form large regions of additional membrane on two sides of the CV. The CV contains membrane-like layers that may be lipid. A food vacuole is observed containing expanded trichocysts of Paramecium. TEM taken on 5/20/69 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 to Photoshop. This digitized image is available for qualitative analysis. A high resolution image is in the library (CIL:38860) and is available for qualitative analysis. Standard glutaraldehyde fixation followed by osmium tetroxide, dehydrated in alcohol and embedded in an epoxy resin. Microtome sections prepared at approximately 75nm thickness. Additional information 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/j0gx49qr
title: CIL:12303, Didinium nasutum, 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 to Photoshop.
Data qualification: Processed;spatialmeasurements
description: The division furrow of a dividing Didinium. A thick layer of epiplasm coated on the cytosolic side by mitochondria forms the constricting ring in the furrow. As usual mucocysts lie between the epiplasm and the pellicular membranes. The new cytopharynx in the opisthe already has lamellae and the alveolus seems to be absent from this region. The macronucleus is constricted in the furrow and elongated nucleoli are stretched out along microtubules are evident. TEM taken on 5/21/69 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 to Photoshop. This digitized image is available for qualitative analysis. A high resolution image is in the library (CIL:38865) and can be used for qualitative analysis. Standard glutaraldehyde fixation followed by osmium tetroxide, dehydrated in alcohol and embedded in an epoxy resin. Microtome sections prepared at approximately 75nm thickness. Additional information available at (http://www5.pbrc.hawaii.edu/allen/).
DOI: 10.6075/j0988649
title: CIL:12300, Didinium nasutum, cell by organism, eukaryotic cell, Eukaryotic Protist, Ciliated Protist. In Cell Image Library

description: Didinium (non-dividing) has a massive cytopharynx at its anterior end that takes the shape of a cone-shaped proboscis when closed. This cytopharynx contains numerous lamellae composed of sets of microtubules that lie perpendicular to each other next to the cytopharyngeal membrane. Vesicles containing a uniform medium dense material (mucocysts?), line up between the lamellae. Presumably these vesicles fuse with the single cytopharyngeal membrane that covers the lamellae. Extrusomes called toxicysts lie within in the cytopharyngeal region. TEM taken on 9/19/68 by R. Allen with Philips 300 operating at 60kV. Neg. 10,300X. Bar = 0.5µm. The negative was printed to paper and the image was scanned to Photoshop. This digitized image is available for qualitative analysis. A high resolution version is available for quantitative analysis (CIL:38861). Standard glutaraldehyde fixation followed by osmium tetroxide, dehydrated in alcohol and embedded in an epoxy resin. Microtome sections prepared at approximately 75nm thickness. Additional information 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/j0513www
title: CIL:123, Gallus gallus gallus, erythrocyte. In Cell Image Library

description: The image was recorded with a FEI Tecnai 12 TEM at 100KV and recorded on a TVIPS 2048x2048 CCD with 2x binning.
 See Nikitina T, Woodcock CL. 2004. Closed chromatin loops at the ends of chromosomes. J Cell Biol.166:161-5.
description: Preparation: glutaraldehyde fixed tissue
Relation to intact cell: isolated subcellular component
Item type: charge coupled device (CCD)
Imaging mode: transmission electron microscopy (TEM)
Parameter imaged: electron density
Source of contrast: differences in adsorption or binding of stain
Visualization methods: uranyl salt
Processing history: unprocessed raw image
description: Telomeres were isolated from chicken erythrocyte nuclei following restriction endonuclease treatment, and imaged by transmission EM after uranyl acetate negative staining. Like its DNA counterpart, telomeric chromatin has have a looped conformation, which likely aids in protection from the rapid degradation that occurs with free DNA ends.
DOI: 10.6075/j0zk5ft1
title: CIL:12299, Didinium nasutum, 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 to Photoshop.
Data qualification: Processed;spatialmeasurements
description: A dividing Didinium nasutum. This large ciliate is capable of engulfing Paramecium. It has a thick ectoplasm containing numerous mucocysts embedded in its extensive epiplasm. Its external surface is coated with a layer of bacteria in this dividing cell. The cytoplasm is relatively compact under the conditions of fixation used. Electron opaque vacuoles are scattered in the cytoplasm. (For a more detailed report see Wessenberg and Antipa, Protistologica 4:427-447, 1968). TEM taken on 5/9/69 by M. Sage with Philips 300 operating at 60kV. Neg. 3,120X. Bar = 2µm.
description: The negative was printed to paper and the image was scanned to Photoshop. This digitized image is available for qualitative analysis. A high resolution view suitable for qunatitative analysis is available in the library (CIL:38862). Standard glutaraldehyde fixation followed by osmium tetroxide, dehydrated in alcohol and embedded in an epoxy resin. Microtome sections prepared at approximately 75nm thickness. Additional information available at (http://www5.pbrc.hawaii.edu/allen/).
DOI: 10.6075/j05x27px
title: CIL:12297, Taricha granulosa, epithelial cell of lung. In Cell Image Library

description: The retrograde flow of microtubules oriented perpendicular to the leading edge in the lamellipodium is coupled to the movement of immediately adjacent lamellum f-actin speckles. Primary cultures of newt (Taricha granulosa) lung epithelial cells weremicroinjected with X-rhodamine actin and Cy2 tubulin in coinjection. 
Dual-wavelength time-lapse FSM was performed on a spinning disk confocal microscope system. Light from a 50-mW Krypton-Argon ion laser (Melles Griot, OmniChrome) was delivered by a single-mode fiber optic (Point Source) to a Yokogawa spinning disk confocal scan-head (Ultra-View; PerkinElmer) on an inverted microscope (TE300 Quantum; Nikon). Excitation wavelength was selected by a filter-wheel apparatus (Sutter Instruments Co.) containing excitation filters for 488 and 568 nm (Chroma) and an opaque disk used as an excitation shutter. Emission was selected by multiple bandpass dichromatic mirror and emission filter (Chroma). Images were collected by a 100x 1.4NA Plan-Apo DIC objective lens (Nikon) and captured with an Orca 2 camera (Hamamatsu). Microscope functions were controlled by MetaMorph software (Universal Imaging). One set of sequential images of the specimen using 488 nm light for Cy2 tubulin and 568 nm light for X-rhodamine f-actin was collected in the ventral focal plane at 10s intervals for 30–60 min. Images were processed as follows: (1) background subtraction; (2) 3 x3 low pass filter; (3) unsharp mask filter; (4) color coding MT images green and f-actin images red; and (5) color combining into 24-bit RGB images. Video corresponds to Fig 3A and video 4 in J Cell Biol, 158:31-37, 2002
description: Preparation: living tissue
Relation to intact cell: dispersed cells in vitro
Item type: recorded image
Imaging mode: spinning disk confocal microscopy; fluorescent speckle microscopy
Parameter imaged: fluorescence emission
Source of contrast: distribution of a specific protein
Visualization methods: X-Rhodamine; Cy2
Processing history: background subtraction, 3X3 low pass filter, unsharp mask
Data qualification: Processed;spatialmeasurements;intensitiesquantitation
DOI: 10.6075/j09s1pxx
title: CIL:42255, Drosophila melanogaster, endocrine cell, muscle cell. In Cell Image Library

description: Confocal micrograph showing the hormone-producing enteroendocrine cells of the Drosophila melanogaster adult midgut. The enteroendocrine cell nuclei are labelled with an anti-Prospero antibody (red), and the cytoplasms of a subset are highlighted in green. The muscle fibers of this portion of the aduult digestive tract are labelled in blue for actin with phalloidin staining.
description: Preparation: formaldehyde fixed tissue
Relation to intact cell: whole mounted tissue
Item type: recorded image
Imaging mode: confocal microscopy
Parameter imaged: fluorescence emission
Source of contrast: distribution of epitope
Visualization methods: primary antibody plus labeled secondary antibody; phalloidin
DOI: 10.6075/j0b56hrm
title: CIL:2714, Caenorhabditis elegans. In Cell Image Library

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
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: 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.
DOI: 10.15468/dl.j2cq7g
title: Occurrence Download

description: A dataset containing 14831 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is South America",
 "Country is Chile",
 "DatasetKey is iNaturalist Research-grade Observations",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "PublishingOrg is 28eb1a3f-1c15-4a95-931a-4af90ecb574d",
 "TaxonKey is Coleoptera",
 "Year 2000-2025"
 ]
}

 The dataset includes 14831 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009245-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6075/j02n519z
title: CIL:6558, Oryctolagus cuniculus, skeletal muscle cell. In Cell Image Library

description: Rabbit psoas skeletal muscle fibers were held at constant length and rigor induced by immersion in glycerol. The fibers were fixed in buffered glutaraldehyde, treated with tannic acid and 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.

This image was recorded on Kodak 4489 film at 75,000x magnification. Stereo pairs were taken at +5 and -5 degrees. Films were scanned with a 20 micrometer pixel spacing on a Nikon Coolscan 9000ED scanner.

Stereo pair with CIL:6566.
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
DOI: 10.6075/j0222tvn
title: CIL:32088, Homo sapiens, osteocarcenoma. In Cell Image Library

description: Preparation: formaldehyde fixed tissue
Relation to intact cell: dispersed cells in vitro
Item type: recorded image
Imaging mode: plate reader
Parameter imaged: fluorescence emission
Source of contrast: distribution of a specific protein; distribution of DNA
Visualization methods: EGFP
Processing history: unprocessed raw data
description: The images constitute one row of a 348 well plate. The dose curve consists of 11 dose points and one control. Each concentration is duplicated in adjacent wells. Each well has three fields.
description: This image set is of Transfluor assay where an orphan GPCR (G-protein coupled receptor) is stably integrated into a beta-arrestin GFP (green) expressing U2OS cell line also showing nucleus (red). After one hour incubation with a compound, the cells were quenched with fixative (formaldehyde) and the plate was read on Cellomics ArrayScan HCS Reader using the GPCR Bioapplication. Negative results are a more uniform distribution of GFP throughout the cytoplasm and positive results are a peri-nuclear localization.
Recommended attribution: "We used the SBS Roche Transfluor image set provided by Ilya Ravkin and available from the Broad Bioimage Benchmark Collection (www.broad.mit.edu/bbbc)."
Analysis of the data set can be downloaded from http://www.broadinstitute.org/bbbc/sbs_roche_transfluor.html