cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6075/j08c9v3t
title: CIL:26541, Mus musculus, fibroblast. In Cell Image Library

description: Cells were cultured in DME (Invitrogen) supplemented with 10% fetal bovine serum and 100 U/ml penicillin/streptomycin (Invitrogen) at 37°C in a humidified 5% CO2 incubator. Scrambled siRNA transfected NIH3T3 cells were treated with DMSO for 30 min, and co-stained for betaPIX (green) and vinculin (red). Images were captured by Olympus IX81-ZDC inverted microscope with UPlanFL N 40X objective.
description: Preparation: formaldehyde fixed tissue; detergent permeabilized
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 epitope
Visualization methods: Alexa Fluor 488; Alexa Fluor 546
Data qualification: Raw
description: To study the molecular mechanism by which nonmuscle myosin II (MII) regulates protrusion and adhesion dynamics in migrating cells, NIH3T3 cells were treated with scrambled siRNA (Scr) for 2 days, treated with DMSO for 30 min., and stained for βPIX (green) and vinculin (red). In scrambled siRNA-treated cells treated with DMSO, vinculin localized to large focal adhesions at the cell periphery that overlapped with βPIX. These findings help elucidate a functional link between MII and Rac1/Cdc42 GTPases, which may regulate protrusion/adhesion dynamics in migrating cells. This image is the original data file from Fig. 6A, “Requirement for βPIX in MII-regulated cell protrusion and adhesion.” J. Cell Biol. 2010. Vol. 190(4):663–674.
DOI: 10.6075/j0qf8rn3
title: CIL:26566, Mus musculus, embryonic stem cell. In Cell Image Library

description: Preparation: formaldehyde fixed tissue
Relation to intact cell: whole mounted tissue
Item type: charge coupled device (CCD)
Imaging mode: fluorescence microscopy
Parameter imaged: fluorescence emission
Source of contrast: distribution of a specific protein; differences in adsorption or binding of stain
Visualization methods: 4',6-diamidino-2-phenylindole (DAPI); EGFP
Processing history: constrained iterative deconvolution
Data qualification: Processed;spatialmeasurements
description: Formaldehyde fixed cells were imaged using an IMT-2 Olympus fluorescence microscope with 60x 1.4 NA objective lens. Z-series were recorded, and the slices processed by iterative constrained deconvolution. 
See also: P Sinclair et al. 2010 Dynamic plasticity of large scale chromatin structure revealed by self-assembly of engineered chromosome regions. J Cell Biol 109:761-776.
description: Image shows a z-series of a mouse ES cell carrying an alpha-globin BAC transgene array (clone 1c) hybridized with probes against the lac operator repeat (green) and the entire alpha-globin BAC sequence (red). Lac operator sequences formed foci which assumed a more interior location within the engineered chromosome subterritory formed by the BAC transgene array. DAPI counterstaining is shown in blue. Pixel sizes (xy) were 0.074 microns and z-focus steps were 0.2 microns.
DOI: 10.6075/j0sn07qf
title: CIL:26565, Mus musculus, embryonic stem cell. In Cell Image Library

description: Image shows a z-series of a mouse ES cell observed using 3D immuno-FISH. The ES cells carried a multi-copy insertion of an alpha-globin BAC. H3K9me3 immunostaining (red) is shown in comparison to vector backbone FISH signal (green) and DAPI staining (blue).
description: Preparation: formaldehyde fixed tissue
Relation to intact cell: whole mounted tissue
Item type: charge coupled device (CCD)
Imaging mode: fluorescence microscopy
Parameter imaged: fluorescence emission
Source of contrast: distribution of a specific protein; differences in adsorption or binding of stain
Visualization methods: 4',6-diamidino-2-phenylindole (DAPI); EGFP
Processing history: constrained iterative deconvolution
Data qualification: Processed;spatialmeasurements
description: Formaldehyde fixed cells were imaged using an IMT-2 Olympus fluorescence microscope with 60x 1.4 NA objective lens. Z-series were recorded, and the slices processed by iterative constrained deconvolution. Pixel dimensions are 0.067 microns (xy) with z-spacing 0.2 microns. 
See also: P Sinclair et al. 2010 Dynamic plasticity of large scale chromatin structure revealed by self-assembly of engineered chromosome regions. J Cell Biol 109:761-776.
DOI: 10.6075/j0xw4hk4
title: CIL:26556, Mus musculus, fibroblast. In Cell Image Library

description: Preparation: formaldehyde fixed tissue; detergent permeabilized
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: Alexa Fluor 488; Alexa Fluor 546
Data qualification: Raw
description: Cells were cultured in DME (Invitrogen) supplemented with 10% fetal bovine serum and 100 U/ml penicillin/streptomycin (Invitrogen) at 37°C in a humidified 5% CO2 incubator. Cells were treated with DMSO, 15min, fixed using 3.7% paraformaldehyde in PBS for 15 min, permeabilized using 0.2% Triton X-100 in PBS for 2 min, blocked with 2% BSA in PBS, and stained with the indicated primary antibodies for at 4°C overnight, followed by incubation with a secondary Alexa Fluor 488–, 546– or 594–conjugated antibody. F-actin was visualized with TRITC or Alexa Fluor 350–conjugated phalloidin. Images were captured by Leica TCS SP2 confocal microscope with HCX PL APO 63X objective.
description: To study the molecular mechanism by which nonmuscle myosin II (MII) regulates protrusion and adhesion dynamics in migrating cells, NIH3T3 cells were treated with DMSO for 15 min. and stained for βPIX (green) and myosin IIA (red). These findings help elucidate a functional link between MII and Rac1/Cdc42 GTPases, which may regulate protrusion/adhesion dynamics in migrating cells. This image is the original data file from Fig. S4, “Potential involvement of βPIX in blebbistatin-induced morphological changes in MII-regulated cell protrusion and adhesion.” J. Cell Biol. 2010. Vol. 190(4):663–674.
DOI: 10.6075/j0zs2vc3
title: CIL:27151, 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: An electron micrograph of a thin frozen section treated with a clone of the mAb (D40-2) used to show the A4 antigen on decorated tubules. The immunogold lies along the outer margin of these tubules for the most part. Mitochondria are not labeled. TEM taken on 2/10/93 by R. Allen with Zeiss 10A operating at 80kV. Neg. 19,800X. Bar = 0.2µm. The negative was printed to paper and the image was scanned to Photoshop. This digitized image is available for qualitative analysis. An unprocessed, high resolution version of this image (CIL:13122) is in the library and available for quantitative 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/j04t6j8f
title: CIL: 54750, Homo sapiens, SBAD2 human iPSC line. In Cell Image Library

description: Nanog staining
description: Epifluorescent imaging
description: Imaging mode: fluorescence microscopy
Visualization methods: epifluorescent imaging
DOI: 10.6075/j0x065x8
title: CIL:41759, Bacillus thuringiensis. In Cell Image Library

description: Preparation: formaldehyde fixed tissue
Relation to intact cell: colocated on formvar prepared mesh
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: negative staining
Processing history: unprocessed raw data
description: Negative staining image of Bacillus thuringiensis, which produces spores and crystals in times of stress. The image was taken using transmission electron microscopy.
DOI: 10.6075/j0j67fpg
title: CIL:25843, Cricetulus griseus, epithelial cell. In Cell Image Library

description: Preparation: living 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
Visualization methods: EGFP
Processing history: unprocessed raw data
description: Time-lapse microscopy of a spreading control Cho-K1 cell expressing RLC-D,D–GFP (a phospho-mimetic mutant of the RLC) on fibronectin. The arrow points to the site of initial accumulation of RLC-D,D–GFP. Note the protrusion opposite the concentration of RLC-D,D, which results in cell polarization and definition of the rear. Images were captured in TIRF mode using an inverted microscope (IX70; Olympus) coupled to a CCD camera (Retiga Exi; Qimaging). Live samples were acquired at 37°C using CCM1 medium. This movie corresponds to Fig. 1 C. and Video 1 from J Cell Biol 2011 193:381-396.
DOI: 10.6075/j0nc60qt
title: CIL: 52441, Homo sapiens, High-grade serious overian cancer. In Cell Image Library

description: Tile x=5, y=3, z=17 from BL024199_Myc_Terc
description: One z layer of a z-stack at the given tile position
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/j0930tc4
title: CIL:54913, Homo sapiens, pyramidal cell. In Cell Image Library

description: Imaging mode: Electronic tomography
description: We examined the structural organization of cytoskeletal components and membrane systems in neurons of well preserved biopsy material from Alzheimer’s disease (AD). Information was obtained from thin sectioned material using conventional electron microscopy and from thick sections with the high voltage electron microscope.
description: This image displays the PHF array.
DOI: 10.15468/dl.bxns4t
title: Occurrence Download

description: A dataset containing 7 species occurrences available in GBIF matching the query:
{
 "and" : [
 "GadmGid is CHN.28_1",
 "TaxonKey is Orobanche coerulescens"
 ]
}

 The dataset includes 7 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009271-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6075/j0h41r90
title: CIL: 54757, Homo sapiens, SBAD2 human iPSC line. In Cell Image Library

description: DAPI staining
description: Imaging mode: fluorescence microscopy
Visualization methods: epifluorescent imaging
description: Epifluorescent imaging
DOI: 10.6075/j0xd10c8
title: CIL:37334, epidermal cell. In Cell Image Library

description: Preparation: living tissue
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
Data qualification: Raw
description: The video shows epidermal cells at the edge of an epithelial sheet in culture. There is vigorous lamellipodial activity at the edge of the cell cluster. Lysosomes and elongated mitochondrial are seen near the nucleus. This lamellipodial activity is involved in wound closure; in culture the edge of the epithelial sheet is in a chronic wound state. Video made available by Mark Cooper thru Zebrafish - The Living Laboratory.
DOI: 10.6075/j0cv4gfm
title: CIL:11819, Danio rerio, yolk syncytial layer cell. In Cell Image Library

description: Preparation: living tissue
Relation to intact cell: whole mounted tissue
Item type: recorded image
Imaging mode: fluorescence microscopy
Parameter imaged: fluorescence emission
Source of contrast: compartmentalization of stain or label
Visualization methods: visualization of contiguous regions
Processing history: unprocessed raw data
description: Dorsal cell movements during zebrafish gastrulation includes a combination of epiboly, involution, and convergence and extension along the embryonic axis. Note that videos CIL 11818, 11819, and 11820 are all of the same sequence. 11819 is the raw data, 11818 can be viewed in 3D when wearing red/blue glasses and 11820 has some cells marked with colored dots for tracking the movement and timing of cell involution and convergence.. Cells closer to the margin involute first and end up in more anterior locations in the hypoblast, while cell involuting later move to more posterior locations along the anterior-posterior axis. Video made available by Mark Cooper through Zebrafish - The Living Laboratory.
DOI: 10.6075/j00v8c9p
title: CIL: 52382, 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=2, z=21 from BL024199_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/j0br8rqp
title: CIL: 52656, Homo sapiens, High-grade serious overian cancer. In Cell Image Library

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
description: Tile x=6, y=2, z=1 from PS09_287383C_Myc_Terc
description: One z layer of a z-stack at the given tile position
DOI: 10.6075/j01835jw
title: CIL:2882, Coleps hirtus, eukaryotic cell, Eukaryotic Protist, Ciliated Protist. In Cell Image Library

description: A high resolution image of a bundle of microtubules supporting the oral apparatus of Coleps. This micrograph shows the detail of microtubular cross-bridging within one of these rods. Microfibrillar bridges are located at 22nm intervals within the hexagonally packed microtubules. Standard glutaraldehyde fixation followed by osmium tetroxide, dehydrated in alcohol and embedded in an epoxy resin. Microtome sections prepared at approximately 75nm thickness. TEM taken on 5/29/69 by R. Allen with Philips 300 operating at 60kV. Neg. 63,750X. The raw film was scanned with a Nikon Coolscan 9000ED. This high resolution image is suitable for quantitative analysis.

Additional information available at (http://www5.pbrc.hawaii.edu/allen/).
description: Preparation: glutaraldehyde fixed tissue; osmium tetroxide fixed tissue; tissue in epoxy resin embedment
Relation to intact cell: microtome-sectioned tissue
Item type: transmission electron microscopy (TEM); illumination by electrons
Imaging mode: detection of electrons; film
Parameter imaged: electron density
Source of contrast: stain with broad specificity
Visualization methods: stain with broad specificity; osmium tetroxide; uranyl salt; lead salt
Processing history: recorded image; film; unprocessed raw data
Data qualification: Raw;spatialmeasurements;intensitiesquantitation
DOI: 10.6075/j09z94px
title: CIL: 53620. In Cell Image Library

description: Visualization methods: confocal microscopy
description: 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: 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/j0z037c3
title: CIL:1019, Caenorhabditis elegans, muscle cell. In Cell Image Library

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
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.
DOI: 10.6075/j04749h2
title: CIL: 53307, Drosophila melanogaster, Entire Organism. In Cell Image Library

description: Video of fruit fly embryonic development. Video filename format is as follows organism_temperature_embryo. Data was collected at 30.1 degrees Celcius.
description: 30.1 degrees ℃
description: Imaging mode: Gray Scale
Visualization methods: 20x magnification captured by one of the following eyepiece cameras: Swiftcam 3 Megapixel, OMAX 9.0 MP, AmScope MU300
DOI: 10.6075/j0qj7gwk
title: CIL: 52954, Homo sapiens, High-grade serious overian cancer. In Cell Image Library

description: One z layer of a z-stack at the given image
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
description: Image 4, z=5 from SC_011
DOI: 10.6075/j0z036xv
title: CIL:10853, Homo sapiens, epithelial cell. In Cell Image Library

description: Preparation: crosslinking-fixative fixed tissue; tissue in plastic embedment
Relation to intact cell: microtome-sectioned tissue
Item type: transmission electron microscopy (TEM)
Imaging mode: illumination by electrons; detection of electrons
Parameter imaged: electron density
Source of contrast: stain with broad specificity
Data qualification: Processed
description: Figure 277 from Chapter 8 (Lysosomes) of 'The Cell, 2nd Ed.' by Don W. Fawcett M.D. Multivesicular bodies, coated vesicles, and lysosomes are evident in these principle cells of the epithelial lining of the human epididymal duct. Image by Anita Hoffer. A PDF copy of the accompanying chapter is available on the ASCB's BioEDUCATE website.
DOI: 10.6075/j09022kf
title: CIL:36070, Mus musculus, fibroblast. In Cell Image Library

description: Preparation: detergent permeabilized
Relation to intact cell: dispersed cells in vitro
Item type: transmission electron microscopy (TEM)
Imaging mode: illumination by electrons; detection of electrons
Parameter imaged: electron density
Source of contrast: differences in deposition of metal shadow
Data qualification: Processed
description: Figure 438 from Chapter 16 (Cytoplasmic matrix and cytoskeleton) of 'The Cell, 2nd Ed.' by Don W. Fawcett M.D. Two bundles of actin-rich stress fibers are apparent in this high magnification micrograph from a 3T3 cell, treated with Triton, washed, quick frozen with liquid helium, deep etched, and rotary shadowed. Image by John Heuser. A PDF copy of the accompanying chapter is available on the ASCB‚Äôs BioEDUCATE website.
DOI: 10.6075/j0b27vgh
title: CIL:54911, Homo sapiens, pyramidal cell. In Cell Image Library

description: This image displays the PHF array.
description: Imaging mode: Electronic tomography
description: We examined the structural organization of cytoskeletal components and membrane systems in neurons of well preserved biopsy material from Alzheimer’s disease (AD). Information was obtained from thin sectioned material using conventional electron microscopy and from thick sections with the high voltage electron microscope.
DOI: 10.6075/j0833r97
title: CIL:1725, 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: 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 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: 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.