cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6075/j0cz364x
title: CIL:35281, Rattus rattus, hepatocyte. In Cell Image Library

description: Primary rat hepatocytes in culture fixed and stained for beta-tubulin. The microtubules form a network throughout the cytoplasm. In this image they are seen originating from a brighter and denser region adjacent to the cell nucleus.
 
 This is a single optical section a few microns up from the substrate collected by widefield fluorescence microscopy with a Photometrics camera with a KAF1400 chip. The imaging was performed at a microscopy course at Woods Hole Oceanographic Institute in October 1993 and deconvolved on VayTec software running on a Macintosh computer. At the time, deconvolution was new and novel for use by biologists.
description: Image was collected with 1 60X, 63X, or 100X oil immersion objective with a numerical aperture of 1.25 such that each pixel size was 0.23 X 0.23 um. The image was collected as part of a Z series with step size of 0.53 um. A Photometrics cooled CCD camera based on the KAF1400 chip was used.
description: Preparation: formaldehyde fixed tissue; glutaraldehyde fixed tissue
Relation to intact cell: dispersed cells in vitro
Item type: recorded image
Imaging mode: fluorescence microscopy
Parameter imaged: fluorescence emission
Source of contrast: distribution of a specific protein
Visualization methods: Rhodamine; primary antibody plus labeled secondary antibody
Processing history: 3D-deconvolution
Data qualification: Processed;spatialmeasurements
DOI: 10.6075/j0c53jjh
title: CIL:37145, Cavia porcellus, pancreatic cell. In Cell Image Library

description: Original 3.25 in. x 4 in. lantern slides were scanned at 600dpi. Original magnification x50,000.
description: Transmission electron micrograph of exocytosis in a guinea pig pancreas. Image made available by James D. Jamieson and the Department of Cell Biology, Yale University School of Medicine.
description: Preparation: chemically fixed tissue
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: osmium tetroxide
Processing history: unprocessed raw data
DOI: 10.6075/j0pg1r2v
title: CIL:41705, Cricetulus griseus, ovary. In Cell Image Library

description: Preparation: chemically fixed tissue
Relation to intact cell: squash
Item type: film
Parameter imaged: electron density
Source of contrast: differences in adsorption or binding of stain
Visualization methods: uranyl salt
Processing history: unprocessed raw data
Data qualification: Raw;spatialmeasurements;intensitiesquantitation
description: Cells were metaphase arrested with colcemid, then exposed to a low ionic strength medium (0.07M phosphate buffer)containing 50% D20 as a microtubule stabilizer. Preparations were squashed in 3:1 acetic acid:ethanol,stained, and transferred to an EM grid.
See also: H. Ris 1981 Stereoscopic electron microscopy of chromosomes. Meth Cell Biol 22:77-96 H. Ris 1978 Preparation of chromatin and chromosomes for electron microscopy. Meth Cell Biol 18:220-246.
description: High Voltage (1MeV) EM image of metaphase arrested CHO cell squashed in 3:1 acetic acid:ethanol and transferred to an EM grid. Portions of 4 pairs of chromatids are seen. This micrograph was captured at a specimen tilt of 55 degrees. The accompanying image has a tilt of 45 degrees, creating a stereo pair that provides an oblique stereo view of the chromatids.
DOI: 10.6075/j08p5zt2
title: CIL:41581, Cricetulus griseus, epithelial cell. In Cell Image Library

description: Preparation: glutaraldehyde fixed tissue; tissue in plastic embedment
Relation to intact cell: microtome-sectioned tissue
Item type: film
Parameter imaged: electron density
Source of contrast: differences in adsorption or binding of stain
Visualization methods: uranyl salt; lead salt
Data qualification: Raw;spatialmeasurements;intensitiesquantitation
description: High voltage (1MeV) transmission electron microscopy image of a 0.5 micrometer section through a Chinese hamster ovary cell at metaphase showing a chromatid pair, with kinetochores at the centromere. The image was taken with a specimen tilt of 33 degrees and is one of a group of 5 tilts from 73 degrees to 33 degrees at 10 degree intervals. Pairs of images provide oblique stereo views of the chromosome.
description: CHO cells at metaphase were treated with 50% D2O, fixed with glutaraldehyde, embedded in epoxy resin and 0.5 micrometer 'thick' sections stained with uranyl acetate and lead citrate for HVEM observation.
See also:
H. Ris 1981 Stereoscopic electron microscopy of chromosomes. Meth Cell Biol 22:77-96
H. Ris 1978 Preparation of chromatin and chromosomes for electron microscopy. Meth Cell Biol 18:220-246.
DOI: 10.6075/j0j67fk4
title: CIL:37226, Rattus, neuron. In Cell Image Library

description: Transmission electron micrograph of rat neuronal dendrite. 
 Note that this very early (1954) micrograph is primarily of historical interest since it pre-dates glutaraldehye fixation which was introduced in the early 60's and is considered essential for adequate nerve tissue preservation. Examples of nerve tissue micrographs prepared in 1965 are CIL:37218, CIL:37219 and CIL:37220.
 Image made available by James D. Jamieson and the Department of Cell Biology, Yale University School of Medicine.
description: Preparation: chemically fixed tissue
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: osmium tetroxide
Processing history: unprocessed raw data
description: Original 3.25 in. x 4 in. lantern slides were scanned at 600dpi. Original magnification x46,000.
DOI: 10.6075/j0zp44tz
title: CIL:37119, Cavia porcellus, pancreas cell. In Cell Image Library

description: Preparation: osmium tetroxide fixed tissue
Relation to intact cell: sectioned tissue
Item type: recorded image
Imaging mode: transmission electron microscopy (TEM); electron microscope autoradiograph
Parameter imaged: electron density
Source of contrast: differences in adsorption or binding of stain
Visualization methods: uranyl salt; metabolically incorporated radioisotope
Processing history: unprocessed raw data
description: Electron microscope autoradiograph showing the high concentration of radioactivity over the condensing vacuoles of the Golgi complex twenty minutes after injection. Image corresponds to Figure 7 in J. Cell Biol. 20:473-495. Image made available by James D. Jamieson and the Department of Cell Biology, Yale University School of Medicine.
description: Anesthetized animals were intravenously injected with 1-5 millicuris of DL-leucine 4,5-H^3 with a specific activity of 3570 mc/mM. At times ranging from 4 min to 15 hrs after injection the pancreas was removed and fixed in osmium tetroxide. Tissue was embedded in methacrylate, sectioned, and post-stained with uranyl acetate. 

Original 3.25 in. x 4 in. lantern slides were scanned at 600dpi. Original Magnification: x30,000.
DOI: 10.6075/j0jw8d7h
title: CIL:41698, Cricetulus griseus, ovary. In Cell Image Library

description: CHO cells at metaphase were treated with 50% D2O, fixed with glutaraldehyde, embedded in epoxy resin and 0.25 micrometer 'thick' sections stained with uranyl acetate and lead citrate for HVEM observation at 1MeV. See also: H. Ris 1981 Stereoscopic electron microscopy of chromosomes. Meth Cell Biol 22:77-96 H. Ris 1978 Preparation of chromatin and chromosomes for electron microscopy. Meth Cell Biol 18:220-246.
description: Preparation: chemically fixed tissue
Relation to intact cell: microtome-sectioned tissue
Item type: film
Parameter imaged: electron density
Source of contrast: differences in adsorption or binding of stain
Visualization methods: uranyl salt
Data qualification: Raw;spatialmeasurements;intensitiesquantitation
description: High Voltage EM image of CHO metaphase chromosomes from a 'thick' section of metaphase-arrested cells treated with D20 to stabilize microtubules. This image was recorded with a specimen tilt of 55 degrees. The accompanying grouped image had a tilt of 45 degrees to create a stereo pair providing an oblique 3D view of the chromosomes.
DOI: 10.6075/j0s75f8v
title: CIL:34598, Homo sapiens, hepatocyte. In Cell Image Library

description: HuH-7 cells are an immortalized cultured cell line derived from hepatic carcinoma. Cells were grown on 1.5 glass coverslips, fixed with formaldehyde and glutareldehyde, extracted, and labeled for fluorescence microscopy with commercial antibodies to alpha- or beta-tubulin and propidium iodide. The coverslip was mounted on a slide in PBS and glycerol with n-propyl gallate as an antifading agent. Imaging was performed with a BioRad MRC 600 laser scanning confocal microscope with a Kr/Ar laser with lines at 488 and 568 nm. The microscope was a fixed tube length Nikon Diaphot with 60X N.A. 1.4 phase 3 optics. Z series was collected at less than 0.5 um step sizes. The raw data were filtered with custom C++ routines on a Silicon Graphics computer and then volume reconstruction performed with VoxelView software that treated the structures as solids with light projected onto them.

The original spatial scale has been lost. The original confocal scans were 512 X 512 pixels in XY with each pixel oversampled. Subsequent processing in PhotoShop lost the original scale. The diameter of this cell is approximately 20 um.
description: Preparation: glutaraldehyde fixed tissue; formaldehyde fixed tissue
Relation to intact cell: dispersed cells in vitro
Item type: recorded image
Imaging mode: single-spot confocal microscopy
Parameter imaged: fluorescence emission
Source of contrast: distribution of a specific protein; distribution of nucleic acids
Visualization methods: propidium iodide; Fluorescein (FITC)
Processing history: volume reconstruction
Data qualification: Processed
description: Surface representation of tripolar mitosis in a liver cancer cell line. Normally, dividing cells form a single metaphase plate of paired chromosomes which are pulled apart by opposing microtubule spindles. This image shows abnormal division by three sets of spindles (cyan or light blue) attached to mis-segregated chromosomes (yellow). Other images in this group show the original fluorescence images.
DOI: 10.6075/j0wd3zzx
title: CIL:41725, Cricetulus griseus, ovary. In Cell Image Library

description: CHO cells at metaphase were treated with 50% D2O, fixed with glutaraldehyde, embedded in epoxy resin and 0.5 micrometer 'thick' sections stained with uranyl acetate and lead citrate for HVEM observation at 1 MeV. See also: H. Ris 1981 Stereoscopic electron microscopy of chromosomes. Meth Cell Biol 22:77-96 H. Ris 1978 Preparation of chromatin and chromosomes for electron microscopy. Meth Cell Biol 18:220-246.
description: High Voltage EM image of CHO metaphase chromosomes from a 'thick' section of metaphase-arrested cells treated with D20 to stabilize microtubules. This image was recorded with a specimen tilt of 55 degrees. The accompanying grouped image had a tilt of 45 degrees to create a stereo pair providing an oblique 3D view of the chromosomes.
description: Preparation: chemically fixed tissue
Relation to intact cell: microtome-sectioned tissue
Item type: film
Parameter imaged: electron density
Source of contrast: differences in adsorption or binding of stain
Visualization methods: uranyl salt
Data qualification: Raw;spatialmeasurements;intensitiesquantitation
DOI: 10.6075/j0f47n28
title: CIL:35175, Rattus rattus, permanent cell line cell. In Cell Image Library

description: BioRad Radiance 2000 laser scanning confocal microscope with Kr/Ar laser for excitation of GFP at 488 nm. Nikon Eclipse with planapo 60X NA 1.4 phase 3 infinity corrected optics. Imaged at room temperature at the Analytical Imaging Facility at the Albert Einstein College of Medicine.
description: Overexpression of and arp3-GFP fusion protein in MTLn3 cells, a metastatic rat breast carcinoma line. This Z series sequence of cells in culture shows the protein throughout the cytoplasm and excluded from a few organelles and the nucleus. 
 
 This MTLn3 (rat mammary adenocarcinoma) cell line is advantageous for cancer studies because the cells grow easily in tissue culture, invade artificial 3D matrices, and form tumors in live animal models.
description: Preparation: living tissue
Relation to intact cell: dispersed cells in vitro
Item type: single-spot confocal microscopy
Imaging mode: fluorescence microscopy
Parameter imaged: fluorescence emission
Source of contrast: distribution of a specific protein
Visualization methods: EGFP
Processing history: unprocessed raw data
Data qualification: Raw;spatialmeasurements;intensitiesquantitation
DOI: 10.6075/j0c828gz
title: CIL:9525, Chlamydomonas reinhardtii, plant cell. In Cell Image Library

description: The unicellular alga Chlamydomonas reinhardtii has a pair of anterior flagella that function in motility. In this image, the base of the flagella with basal bodies and associated structures are are cut longitudinally. Below is the spherical nucleus and portions of chloroplast.
description: Preparation: glutaraldehyde fixed tissue; tissue in plastic embedment
Relation to intact cell: microtome-sectioned tissue
Item type: transmission electron microscopy (TEM); film
Imaging mode: detection of electrons
Parameter imaged: electron density
Source of contrast: elastic scattering of electrons
Visualization methods: uranyl salt
Processing history: unprocessed raw data
description: 250 nm thick epon sections were recorded with a high voltage JEM-1000 TEM at 1000KV.
DOI: 10.6075/j0qc02n3
title: CIL:9197, Homo sapiens, permanent cell line cell, epithelial cell. In Cell Image Library

description: Sialyl Transferase-EGFP transfected HeLa cells demonstrating the redistribution of the Golgi Apparatus to the Endoplasmic Reticulum upon treatment with Brefeldin A (BFA). 
Images were collected as a 4D time series (z-stack over time). z-stacks of 48 individual timepoints are included in this collection of files as well as the movie SiEGFP_BFA.avi, which is the maximum projection of the z-stacks at the individual time points.

BFA was added according to the following protocol:
Timepoint1: Before addition of BFA 0seconds (8 Z-slices at 1 um apart)
Timepoint2: After addition of BFA 130seconds (8 Z-slices at 1 um apart) 
Timepoint3: 238 seconds (11 Z-slices at 1 um apart) 
Timepoint3 thru Timepoint48: Images captured every 5 seconds (11 Z-slices at 1 um apart at each time point) 

Images were collected on a Carl Zeiss spinning disk confocal with a 63X 1.4 NA objective with 250 ms exposures at 5 s intervals.
description: Preparation: unfixed tissue
Relation to intact cell: dispersed cells in vitro
Item type: recorded image
Imaging mode: spinning disk confocal microscopy
Parameter imaged: fluorescence microscopy
Source of contrast: distribution of a specific protein
Visualization methods: EGFP
Processing history: unprocessed raw data
DOI: 10.6075/j0s181nw
title: CIL:9196, Homo sapiens, permanent cell line cell, epithelial cell. In Cell Image Library

description: Preparation: unfixed tissue
Relation to intact cell: dispersed cells in vitro
Item type: recorded image
Imaging mode: spinning disk confocal microscopy
Parameter imaged: fluorescence microscopy
Source of contrast: distribution of a specific protein
Visualization methods: EGFP
Processing history: unprocessed raw data
description: Sialyl Transferase-EGFP transfected HeLa cells demonstrating the redistribution of the Golgi Apparatus to the Endoplasmic Reticulum upon treatment with Brefeldin A (BFA). 
Images were collected as a 4D time series (z-stack over time). z-stacks of 48 individual timepoints are included in this collection of files as well as the movie SiEGFP_BFA.avi, which is the maximum projection of the z-stacks at the individual time points.

BFA was added according to the following protocol:
Timepoint1: Before addition of BFA 0seconds (8 Z-slices at 1 um apart)
Timepoint2: After addition of BFA 130seconds (8 Z-slices at 1 um apart) 
Timepoint3: 238 seconds (11 Z-slices at 1 um apart) 
Timepoint3 thru Timepoint48: Images captured every 5 seconds (11 Z-slices at 1 um apart at each time point) 

Images were collected on a Carl Zeiss spinning disk confocal with a 63X 1.4 NA objective with 250 ms exposures at 5 s intervals.
DOI: 10.4121/47b35343-ae36-4e5c-9857-b7fb4fbdab71
title: Data accompanying Chapter 7 of the thesis: Enabling ship changeability; a lifecycle approach to the maritime energy transition

description: This collection contains datasets created as part of the doctoral thesis "Enabling ship changeability; a lifecycle approach to the maritime energy transition by Jesper Jan Zwaginga, M. Sc in Delft University of Technology, 2020-2025. It is being made public both as supplementary data for the thesis and for other researchers to use in their own work. The data is part of the project READINESS, project number TWM.BL.019.002, of the research programme“Topsector Water & Maritime: the Blue route,” which is partly financed by the Dutch Research Council (NWO). The data included in this zip file has the form of PY, .LP and .SOL. A detailed description of the files is found in the README.TXT.
DOI: 10.6075/j0fj2fx7
title: CIL:9199, Homo sapiens, permanent cell line cell, epithelial cell. In Cell Image Library

description: Sialyl Transferase-EGFP transfected HeLa cells demonstrating the redistribution of the Golgi Apparatus to the Endoplasmic Reticulum upon treatment with Brefeldin A (BFA). 
Images were collected as a 4D time series (z-stack over time). z-stacks of 48 individual timepoints are included in this collection of files as well as the movie SiEGFP_BFA.avi, which is the maximum projection of the z-stacks at the individual time points.

BFA was added according to the following protocol:
Timepoint1: Before addition of BFA 0seconds (8 Z-slices at 1 um apart)
Timepoint2: After addition of BFA 130seconds (8 Z-slices at 1 um apart) 
Timepoint3: 238 seconds (11 Z-slices at 1 um apart) 
Timepoint3 thru Timepoint48: Images captured every 5 seconds (11 Z-slices at 1 um apart at each time point) 

Images were collected on a Carl Zeiss spinning disk confocal with a 63X 1.4 NA objective with 250 ms exposures at 5 s intervals.
description: Preparation: unfixed tissue
Relation to intact cell: dispersed cells in vitro
Item type: recorded image
Imaging mode: spinning disk confocal microscopy
Parameter imaged: fluorescence microscopy
Source of contrast: distribution of a specific protein
Visualization methods: EGFP
Processing history: unprocessed raw data
DOI: 10.4121/47b35343-ae36-4e5c-9857-b7fb4fbdab71.v1
title: Data accompanying Chapter 7 of the thesis: Enabling ship changeability; a lifecycle approach to the maritime energy transition

description: This collection contains datasets created as part of the doctoral thesis "Enabling ship changeability; a lifecycle approach to the maritime energy transition by Jesper Jan Zwaginga, M. Sc in Delft University of Technology, 2020-2025. It is being made public both as supplementary data for the thesis and for other researchers to use in their own work. The data is part of the project READINESS, project number TWM.BL.019.002, of the research programme“Topsector Water & Maritime: the Blue route,” which is partly financed by the Dutch Research Council (NWO). The data included in this zip file has the form of PY, .LP and .SOL. A detailed description of the files is found in the README.TXT.
DOI: 10.6075/j0w37vfc
title: CIL:9687, Paramecium multimicronucleatum, eukaryotic cell, Eukaryotic Protist, Ciliated Protist. In Cell Image Library

description: Preparation: living tissue
Relation to intact cell: isolated subcellular component
Item type: microscopy; modes of light microscopy
Imaging mode: differential interference contrast microscopy
Parameter imaged: refractive index
Source of contrast: boundaries between regions with different refractive index
Visualization methods: miscellaneous fill
Processing history: film; unprocessed raw data
description: Paramecium multimicronucleatum - Video of the Contractile Vacuole Complex. In vitro CVC rounding/relaxing cycles. An in vitro CV in a ruptured Paramecium cell is surrounded by cytoplasmic vesicles and partially diluted cytoplasmic fluid. The CV periodically rounds and relaxes. One radial arm is visible which can swell as it is still able to accumulate fluid and it then fuses with the CV as the CV relaxes. A DVD resolution version of this is available at CIL:10416.
DOI: 10.6075/j08k788b
title: CIL:9533, notopthalmus viridescens, erythrocyte. In Cell Image Library

description: Newt (Notopthalmus viridescens erythrocytes were isolated in 0.1M KCl, spread on the surface of Na-citrate, picked up on formvar-carbon films, fixed with glutaraldehyde and paraformaldehyde and negatively stained with 2% sodium tetraborate. Images were recorded at 40KX and accelerating voltage of 1MeV at the University of Wisconsin HVEM facility.This image was taken with a specimen tilt of 55 degrees. A grouped image of the same field at a 45 degree tilt provides a stereo view of the tangle of chromatin fibers in the dispersed nucleus.
description: Preparation: glutaraldehyde fixed tissue; formaldehyde fixed tissue
Relation to intact cell: spread nucleus
Item type: film
Imaging mode: transmission electron microscopy (TEM); illumination by electrons; detection of electrons
Parameter imaged: electron density
Source of contrast: differences in adsorption or binding of stain
Visualization methods: other negative stain; uranyl salt
Processing history: unprocessed raw data
DOI: 10.15468/dl.pfzxdp
title: Occurrence Download

description: A dataset containing 1089 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((114.46915 10.76275,157.70706 35.98486,115.97048 43.19119,93.30061 37.63632,95.40244 22.92342,114.46915 10.76275))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Lysimachia christinae"
 ]
}

 The dataset includes 1089 records from 27 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009718-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6075/j0b56hth
title: CIL:9531, notopthalmus viridescens, erythrocyte. In Cell Image Library

description: Preparation: glutaraldehyde fixed tissue; formaldehyde fixed tissue
Relation to intact cell: spread nucleus
Item type: film
Imaging mode: transmission electron microscopy (TEM); illumination by electrons; detection of electrons
Parameter imaged: electron density
Source of contrast: differences in adsorption or binding of stain
Visualization methods: other negative stain
Processing history: unprocessed raw data
description: Newt (Notopthalmus viridescens) erythrocytes were isolated in 0.1M KCl, spread on the surface of 5mM Na-citrate, picked up on formvar-carbon films, fixed with glutaraldehyde and paraformaldehyde and negatively stained with sodium tetraborate. Images were recorded at 40KX and accelerating voltage of 1MeV at the University of Wisconsin HVEM facility.This image was taken with a specimen tilt of 55 degrees. A grouped image of the same field at a 45 degree tilt provides an oblique stereo view of the tangle of chromatin fibers emanating from the dispersed nucleus.