cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6075/j0c828mr
title: CIL:1057, 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 2 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/j0w37vjq
title: CIL:1062, Caenorhabditis elegans, muscle cell. In Cell Image Library

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 2 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: 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.
DOI: 10.6075/j06d5s53
title: CIL:10569, Toxoplasma gondii RH. In Cell Image Library

description: A monolayer of human foreskin fibroblast cells was infected with Toxoplasma gondii expressing YFP-tagged Tgalpha1tubulin and mRFP-tagged TgDLC (dynein light chain). DIC Images acquired using API DeltaVision on a Olympus IX70 inverted microscope. Objective: Olympus 60X, 1.4 NA. Captured with CoolSnapHQ/ICX285. DIC stack corresponds to raw data stack: CIL# 10557 and deconvolved data stack: CIL# 10558.

Unpublished image that is similar to images published in PMID: 16518471. See publication for other experimental details.
description: Preparation: living tissue
Relation to intact cell: whole mounted tissue
Item type: recorded image; charge coupled device (CCD)
Imaging mode: differential interference contrast microscopy
Parameter imaged: optical path length gradient
Source of contrast: boundaries between regions with different refractive index
Data qualification: Raw;spatialmeasurements;intensitiesquantitation
DOI: 10.6075/j0cn73gk
title: CIL: 52857, Homo sapiens, High-grade serious overian cancer. In Cell Image Library

description: One z layer of a z-stack at the given tile position
description: Tile x=4, y=4, z=13 from PS11_167511L_Myc_Terc
description: Imaging mode: Fluorescence in situ hybridization (FISH)
Visualization methods: Nikon Eclipse fluorescence inverted microscope equipped with a charge-coupled device camera (Andor Neo sCMOS), using filter sets for DAPI/ YGFP/TRITC/CY GFP with an objective lens (Plan Apo VC 100x, Nikon). Captured with 100x magnification of the objective and a pixel size of 0.07 microns
DOI: 10.6075/j0xp744t
title: CIL:1064, Caenorhabditis elegans, muscle cell. In Cell Image Library

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 2 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: 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.
DOI: 10.6075/j08g8jxh
title: CIL:1061, 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: 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 2 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: 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.
DOI: 10.5281/zenodo.17492823
title: SOILCRATES Soil Health Dataset
DOI: 10.6075/j00z720k
title: CIL:10602, Leishmania mexicana, Mus musculus, macrophage, parasite. In Cell Image Library

description: Preparation: formaldehyde fixed tissue
Relation to intact cell: permeabilized tissue
Item type: recorded image
Imaging mode: fluorescence microscopy
Parameter imaged: fluorescence emission; optical path length gradient
Source of contrast: differences in adsorption or binding of stain; boundaries between regions with different refractive index
Visualization methods: propidium iodide
Processing history: unprocessed raw data
Data qualification: Raw;spatialmeasurements;intensitiesquantitation
description: Macrophage cell line cell infected with Leishmania mexicana. Five amastigotes can be seen within a single large parasitophorous vacuole in the macrophage. Raw 264.7 cells (a leukaemic mouse macrophage line) were infected with amastigote form Leishmania mexicana (WHO strain MNYC/BZ/62/M379) at an MOI of 10 and maintained in RPMI for 4 days. Cells were fixed with 2% paraformaldehyde, and DNA was labelled with propidium iodide following incubation with 50 ug/ml RNaseA for 30 min at room temperature. Z stack of 93 images with a z spacing of 0.194 um captured with a 100x/1.4 NA objective lens on a DM5500 B epifluorescence microscope (Leica) with an Orca cooled CCD camera (Hamamatsu). Note there is a phase channel image that is not currently displayed, but can be turned on in the full viewer mode.
DOI: 10.6075/j0n8792c
title: CIL:1042, Caenorhabditis elegans, muscle cell. In Cell Image Library

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 1 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: 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: 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
DOI: 10.6075/j0z31xtg
title: CIL:10412, 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: DVD quality video of the Contractile Vacuole Complex of Paramecium multimicronucleatum. 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.
DOI: 10.6075/j01v5f0n
title: CIL:10406, Rattus, multipolar neuron. In Cell Image Library

description: Cultured hippocampal neurons after 23 days in vitro, immunostained for MAP2, a microtubule associated protein localized to dendrites (red), and PSD95, a scaffolding protein concentrated in the postsynaptic density of excitatory synapses, particularly in dendritic spines (green). 

Detailed methods: Embryonic rat hippocampal neurons were prepared as previously described (see Kaech and Banker, 2006, Nat Protoc). Cells were prepared for fluorescent staining as previously described (Withers and Banker, 1998, in Culturing Nerve Cells, MIT Press). Briefly, cells were fixed (4% formaldehyde, 4% sucrose in phosphate buffered saline, pH 7.4), permeabilized with 0.25% Triton and immunostained for MAP2 (from S. Halpain) with d549 conjugated secondary, excitation, 555, emission, 568, Jackson Immunoresearch) and PSD95 (from NeuroMab, with Alexa488 conjugated secondary, excitation, 496, emission, 519, Invitrogen). Images were acquired with a Leica DMRA microscope with a 40X lens (HCX PL Fluotar, NA 0.75), Photometrics CoolSnap ES CCD camera and MetaMorph software. The merged image was generated by creating a MetaMorph stack file.
description: Preparation: formaldehyde fixed tissue; detergent permeabilized
Relation to intact cell: dispersed cells in vitro
Item type: recorded image
Imaging mode: fluorescence microscopy; phase contrast microscopy
Parameter imaged: fluorescence emission
Source of contrast: distribution of epitope; elastic scattering of photons
Visualization methods: primary antibody plus labeled secondary antibody
Processing history: unprocessed raw data
Data qualification: Processed;spatialmeasurements
DOI: 10.6075/j0z89bjm
title: CIL:10409, 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: DVD quality video of the Contractile Vacuole Complex of Paramecium multimicronucleatum. Measuring membrane tension of the in vitro CV. To measure the build up of tension by the CV membrane an in vitro CV surrounded by a thin layer of cytosol containing ATP was mounted on the tip of a holding pipette and a thin glass rod or sphere, mounted on the tip of a microcantilever, was rested on the CV's membrane. During rounding of the CV the sphere or glass rod was pushed upward which is then recorded as an output voltage of a position sensor. This can be converted into force which, in turn, can be converted into tension. The tension of the rounded CV membrane increased 35-fold over the tension of the relaxed membrane.
DOI: 10.6075/j01z43ks
title: CIL:10411, Paramecium multimicronucleatum, eukaryotic cell, Eukaryotic Protist, Ciliated Protist. In Cell Image Library

description: Preparation: living tissue
Relation to intact cell: compressed living tissue
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: DVD quality video of the Contractile Vacuole Complex of Paramecium multimicronucleatum. In vivo CVC filling/expulsion cycles. A CV in a compressed cell is observed in side view undergoing cycles of filling (diastole) and expulsion (systole) of its fluid content as the CV membrane fuses then separates from the plasma membrane and with one radial arm. The radial arm fuses with the CV after systole then just before systole it again separates from the CV. As the CV empties fluid will flow into the end of the radial arm next to the CV that is called the ampullus. This fluid comes from the collecting canal of the same radial arm. There are actually 5 to 10 radial arms connected to one CV but the others are out of the focus plane or out of the field of focus. Movies were taken by Dr. Tomomi Tani with differential interference contrast optics attached to a Leica DMIRB inverted microscope. A Leica Fluotar x63 objective lens (NA = 0.7) was used.
DOI: 10.6075/j0fb5230
title: CIL:10425, Gallus gallus, erythrocyte. In Cell Image Library

description: Preparation: formaldehyde fixed tissue; critical_point dried specimen
Relation to intact cell: spread preparation
Item type: film
Imaging mode: transmission electron microscopy (TEM); darkfield illumination
Parameter imaged: electron density
Source of contrast: differences in deposition of metal shadow
Visualization methods: shadowing and plating
Processing history: unprocessed raw data
description: Nucleated erythrocytes from chicken were spread on water, the dispersed chromatin picked up on carbon-formvar grids, fixed with paraformaldehye, critical point dried and shadowed with platinum. Images were obtained with the Wisconsin high voltage TEM at 1MEV using darkfield illumination. For this micrograph, the grid was tilted to 44 degrees. A similar micrograph tilted to 55 degrees providing a stereo pair with an oblique 3D view of the tangled and irregular chromatin fibers is grouped with this image. The combination of shadowing and darkfield illumination gives a quasi-negative stain effect revealing nucleosomes in some fibers.
DOI: 10.6075/j0639nz5
title: CIL:10424, Gallus gallus, erythrocyte. In Cell Image Library

description: Nucleated erythrocytes from chicken were spread on water, the dispersed chromatin picked up on carbon-formvar grids, fixed with paraformaldehye, critical point dried and shadowed with platinum. Images were obtained with the Wisconsin high voltage TEM at 1MEV using darkfield illumination. For this micrograph, the grid was tilted to 54 degrees. A similar micrograph tilted to 43 degrees providing a stereo pair with an oblique 3D view of the tangled and irregular chromatin fibers is grouped with this image. The combination of shadowing and darkfield illumination gives a quasi-negative stain effect revealing nucleosomes in some fibers.
description: Preparation: formaldehyde fixed tissue; critical_point dried specimen
Relation to intact cell: spread preparation
Item type: film
Imaging mode: transmission electron microscopy (TEM); darkfield illumination
Parameter imaged: electron density
Source of contrast: differences in deposition of metal shadow
Visualization methods: shadowing and plating
Processing history: unprocessed raw data
DOI: 10.6075/j0m044hx
title: CIL:10429, Gallus gallus, erythrocyte. In Cell Image Library

description: Preparation: formaldehyde fixed tissue; critical_point dried specimen
Relation to intact cell: spread preparation
Item type: film
Imaging mode: transmission electron microscopy (TEM); darkfield illumination
Parameter imaged: electron density
Source of contrast: differences in deposition of metal shadow
Visualization methods: shadowing and plating
Processing history: unprocessed raw data
description: Nucleated erythrocytes from chicken were spread on water, the dispersed chromatin picked up on carbon-formvar grids, fixed with paraformaldehye, critical point dried and shadowed with platinum. Images were obtained with the Wisconsin high voltage TEM at 1MEV using darkfield illumination. For this micrograph, the grid was tilted to 54 degrees. A similar micrograph tilted to 40 degrees providing a stereo pair with an oblique 3D view of the tangled and irregular chromatin fibers is grouped with this image. The combination of shadowing and darkfield illumination gives a quasi-negative stain effect revealing nucleosomes in some fibers.
DOI: 10.6075/j00c4tz7
title: CIL:10418, Gallus gallus, erythrocyte. In Cell Image Library

description: Nucleated erythrocytes from chicken were spread on water, the dispersed chromatin picked up on carbon-formvar grids, fixed with paraformaldehye, critical point dried and shadowed with platinum. Images were obtained with the Wisconsin high voltage TEM at 1MEV using darkfield illumination. For this micrograph, the grid was tilted to 60 degrees. A similar micrograph tilted to 40 degrees providing a stereo pair with an oblique 3D view of the tangled and irregular chromatin fibers is grouped with this image.
description: Preparation: formaldehyde fixed tissue; critical_point dried specimen
Relation to intact cell: spread preparation
Item type: film
Imaging mode: transmission electron microscopy (TEM); darkfield illumination
Parameter imaged: electron density
Source of contrast: differences in deposition of metal shadow
Visualization methods: shadowing and plating
Processing history: unprocessed raw data
DOI: 10.6075/j0bv7fqm
title: CIL:10422, Gallus gallus, erythrocyte. In Cell Image Library

description: Preparation: formaldehyde fixed tissue; critical_point dried specimen
Relation to intact cell: spread preparation
Item type: film
Imaging mode: transmission electron microscopy (TEM); darkfield illumination
Parameter imaged: electron density
Source of contrast: differences in deposition of metal shadow
Visualization methods: shadowing and plating
Processing history: unprocessed raw data
description: Nucleated erythrocytes from chicken were spread on water, the dispersed chromatin picked up on carbon-formvar grids, fixed with paraformaldehye, critical point dried and shadowed with platinum. Images were obtained with the Wisconsin high voltage TEM at 1MEV using darkfield illumination. For this micrograph, the grid was tilted to 60 degrees. A similar micrograph tilted to 40 degrees providing a stereo pair with an oblique 3D view of the tangled and irregular chromatin fibers is grouped with this image.
DOI: 10.6075/j06d5s6j
title: CIL:10416, 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: DVD quality video of the Contractile Vacuole Complex of Paramecium multimicronucleatum. 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.
DOI: 10.6075/j0kh0n16
title: CIL: 53876, Homo sapiens, HeLa. In Cell Image Library

description: OTHER family: The human kinome comprises 538 kinases playing essential cellular functions by catalyzing protein phosphorylations. Systematic annotation of subcellular spatial distribution of the kinome greatly facilitates investigation of normal and disease mechanisms. Here, we present Kinome Atlas (KA), an image-based map of the kinome annotated to 10 compartments of the cell. 456 epitope-tagged kinases, representing 85% of the human kinome, were expressed in HeLa cells and imaged by immunofluorescent microscopy under a unified condition. KA revealed kinase family-enriched subcellular localizations, and discovered a collection of new kinase localizations at mitochondria, plasma membrane, extracellular space, and other unique structures. This resource provides the first snapshot of the kinome under a unified condition, and is a key step toward comprehensive understanding of the spatial and temporal dynamics of the kinome in physiological and disease states.
description: Visualization methods: confocal microscopy
description: Kinome Atlas documented representative images for 456 kinases expressed in HeLa cells, and visualized by immunofluorescence staining of the epitope tag. Nuclei were stained with DAPI. Two representative views from confocal microscopy were collected for each kinase. Also, organelle markers were co-stained for some kinases to indicate specific localization.
DOI: 10.6075/j07h1j8c
title: CIL: 53626. In Cell Image Library

description: Atypical family: The human kinome comprises 538 kinases playing essential cellular functions by catalyzing protein phosphorylations. Systematic annotation of subcellular spatial distribution of the kinome greatly facilitates investigation of normal and disease mechanisms. Here, we present Kinome Atlas (KA), an image-based map of the kinome annotated to 10 compartments of the cell. 456 epitope-tagged kinases, representing 85% of the human kinome, were expressed in HeLa cells and imaged by immunofluorescent microscopy under a unified condition. KA revealed kinase family-enriched subcellular localizations, and discovered a collection of new kinase localizations at mitochondria, plasma membrane, extracellular space, and other unique structures. This resource provides the first snapshot of the kinome under a unified condition, and is a key step toward comprehensive understanding of the spatial and temporal dynamics of the kinome in physiological and disease states.
description: Visualization methods: confocal microscopy
description: Kinome Atlas documented representative images for 456 kinases expressed in HeLa cells, and visualized by immunofluorescence staining of the epitope tag. Nuclei were stained with DAPI. Two representative views from confocal microscopy were collected for each kinase. Also, organelle markers were co-stained for some kinases to indicate specific localization.