cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6075/j05719rc
title: CIL:13997, Homo sapiens. In Cell Image Library

description: Preparation: formaldehyde fixed tissue
Relation to intact cell: whole mounted tissue
Item type: single-spot confocal microscopy
Imaging mode: single-spot confocal microscopy
Parameter imaged: fluorescence emission
Source of contrast: differences in adsorption or binding of stain; distribution of epitope
Visualization methods: Hoechst 33342; Alexa Fluor 488; Alexa Fluor 568
description: This image is part of Fig 2A from the reference article PMID 20212317. HeLa cells were treated with anti-SENP6 siRNA for 36 h and then with nocodazole for further 12 hours. Cells were fixed and stained for centromeres (CREST, red, Alexa Fluor 568), Mad2 (green, Alexa Fluor 488) and Hoechest 33342 (blue).

Fluorescence microscopy was performed at RT on a confocal microscope (LSM510 Meta; Carl Zeiss, Inc.) equipped with a 100× Plan-Apochromat objective. A 543 nm HeNe laser (5 mW output; detection LP560 nm) was used for detection of Alexa Fluor 568–labeled antibodies. The 488nm line of an Argon laser (25 mW nominal output; detection BP 505–530 nm) was used for analysis of Alexa Fluor 488–labeled antibodies. Hoechst 33258 images were captured using the 364nm line of an ion laser (Enterprise II ML UV; Coherent, Inc.; 80 mW nominal output; detection BP 385–470 nm).
DOI: 10.6075/j0vm4b02
title: CIL:13998, Homo sapiens. In Cell Image Library

description: Hela cells were treated with control siRNA and synchronized by double thymidine block. Metaphase cells were fixed and stained with CREST sera (red, Alexa Flour 568), CenpI antibody (green, Alexa Fluor 488) and Hoechst 33342 (blue).

Fluorescence microscopy was performed at RT on a confocal microscope (LSM510 Meta; Carl Zeiss, Inc.) equipped with a 100× Plan-Apochromat objective. A 543 nm HeNe laser (5 mW output; detection LP560 nm) was used for detection of Alexa Fluor 568–labeled antibodies. The 488nm line of an Argon laser (25 mW nominal output; detection BP 505–530 nm) was used for analysis of Alexa Fluor 488–labeled antibodies. Hoechst 33258 images were captured using the 364nm line of an ion laser (Enterprise II ML UV; Coherent, Inc.; 80 mW nominal output; detection BP 385–470 nm).

Image Reference: PMID 20212317
description: Preparation: formaldehyde fixed tissue
Relation to intact cell: whole mounted tissue
Item type: single-spot confocal microscopy
Imaging mode: single-spot confocal microscopy
Parameter imaged: fluorescence emission
Source of contrast: differences in adsorption or binding of stain; distribution of epitope
Visualization methods: Hoechst 33342; Alexa Fluor 488; Alexa Fluor 568
DOI: 10.6075/j08p5z7f
title: CIL:13996, Homo sapiens. In Cell Image Library

description: This image is part of Fig 2A from the reference article PMID 20212317. HeLa cells were treated with control siRNA for 36 h and then with nocodazole for further 12 hours. Cells were fixed and stained for centromeres (CREST, red, Alexa Fluor 568), Mad2 (green, Alexa Fluor 488) and Hoechest 33342 (blue). 

Fluorescence microscopy was performed at RT on a confocal microscope (LSM510 Meta; Carl Zeiss, Inc.) equipped with a 100× Plan-Apochromat objective. A 543 nm HeNe laser (5 mW output; detection LP560 nm) was used for detection of Alexa Fluor 568–labeled antibodies. The 488nm line of an Argon laser (25 mW nominal output; detection BP 505–530 nm) was used for analysis of Alexa Fluor 488–labeled antibodies. Hoechst 33258 images were captured using the 364nm line of an ion laser (Enterprise II ML UV; Coherent, Inc.; 80 mW nominal output; detection BP 385–470 nm).
description: Preparation: formaldehyde fixed tissue
Relation to intact cell: whole mounted tissue
Item type: single-spot confocal microscopy
Imaging mode: single-spot confocal microscopy
Parameter imaged: fluorescence emission
Source of contrast: differences in adsorption or binding of stain; distribution of epitope
Visualization methods: Hoechst 33342; Alexa Fluor 488; Alexa Fluor 568
DOI: 10.6075/j09k49kz
title: CIL:40968, Homo sapiens, epithelial cell. In Cell Image Library

description: Preparation: unfixed tissue
Relation to intact cell: isolated from human urine sample
Item type: recorded image
Imaging mode: fluorescence microscopy
Parameter imaged: fluorescence emission
Source of contrast: distribution of epitope
Visualization methods: acridine orange; CellMask Deep Red (Invitrogen)
Processing history: unprocessed raw data
description: Fluorescent micrograph of epithelial cells from the bladder wall. The cells were isolated immediately after collection of a urine specimen and are not fixed. The image was taken using a standard epi-fluorescent microscope.
DOI: 10.6075/j0wh2nsm
title: CIL:40992, Mus musculus, intestinal cell. In Cell Image Library

description: Original 3.25 in. x 4 in. lantern slides were scanned at 600dpi.
description: Preparation: chemically fixed tissue; tissue in plastic embedment
Relation to intact cell: microtome-sectioned tissue
Item type: film
Imaging mode: transmission electron microscopy (TEM)
Parameter imaged: electron density
Source of contrast: differences in adsorption or binding of stain
Visualization methods: uranyl salt; osmium tetroxide; lead salt
Data qualification: Processed
description: Transmission electron micrograph of a thin section of mouse intestine showing part of a cell with nucleus at left. The cytoplasm contains both membrane-associated polysomes (rough endoplasmic reticulum RER, sometimes termed granular endoplasmic reticulum) and free polysomes. Sen.
DOI: 10.6075/j04t6h47
title: CIL:40994, Rattus rattus, hepatocyte. In Cell Image Library

description: Preparation: chemically fixed tissue; tissue in plastic embedment
Relation to intact cell: microtome-sectioned tissue
Item type: film
Imaging mode: transmission electron microscopy (TEM)
Parameter imaged: electron density
Source of contrast: differences in adsorption or binding of stain
Visualization methods: uranyl salt; osmium tetroxide; lead salt
Data qualification: Processed
description: Original 3.25 in. x 4 in. lantern slides were scanned at 600dpi.
description: Transmission electron micrograph of a thin section of the liver of a 1-day old rat showing a grazing view of rough endoplasmic reticulum (RER, sometimes termed granular endoplasmic reticulum. The 'rough' or 'granular' term refers to the membrane-attached polyribosomes (also known as polysomes) which often occur in a spiral or rosettal conformation. RER-associated polyribosomes are the sites of synthesis of proteins secreted into the RER cisternae and destined for export from the cell.
DOI: 10.6075/j00g3j1g
title: CIL:40670, Drosophila melanogaster. In Cell Image Library

description: Time lapse movie prepared from fluorescence microscopy time series of a Drosophila S2 cell stably expressing mCherry-alpha-tubulin and spreading on a ConA-coated substrate in the presence of cyto D. Long processes containing microtubule bundles are formed. Microtubule looping and entry into the bundles appears to contribute to the growth of the processes. 
 This movie is part of a grouped set that includes the corresponding time series stack of images.
description: Preparation: living tissue
Relation to intact cell: whole mounted tissue
Item type: electron multiplying CCD (EMCCD)
Imaging mode: widefield illumination; fluorescence microscopy
Parameter imaged: fluorescence emission
Source of contrast: distribution of a specific protein
Visualization methods: mCherryFP
description: Time series of widefield fluorescence images were recorded using a Nikon U-2000 inverted microscope equipped with a Nikon 100x NA 1.49 objective lens, Nikon perfect Focus system and Cascade II EMCCD camera (Roper Scientific)driven by Metamorph software. See also Fig 3C and Supplemental Movie S8 in A.L. Jolly et al. 2010 Proc Natl Acad Sci USA 107:12151-12156.
DOI: 10.6075/j0vm4bkp
title: CIL:40672, Mesocricetus auratus, early embryonic cell. In Cell Image Library

description: Stereo pair of an embedment-free section of a detergent-extracted unfertilized hamster egg. The central region of the egg contains two different types of fibrous networks: a thicker network of sheets that form small whorls and arcs and a thinner network. The sheets are specialized intermediate filament network in mammalian eggs and embryos (i.e., the cytoskeletal whorls) that are parallel bundles of intermediate filaments that disassemble into individual intermediate filaments. Scale bar is 1.0 µm.
description: Preparation: detergent permeabilized; chemically fixed tissue; osmium tetroxide fixed tissue; embedment medium removal
Relation to intact cell: sectioned tissue
Item type: recorded image
Imaging mode: transmission electron microscopy (TEM)
Parameter imaged: detection of electrons
Source of contrast: differences in adsorption or binding of stain
Processing history: stereo pair
description: Sections were imaged with a Phillips CM300 transmission electron microscope. See Capco DG, McGaughey RW. Dev Biol. 1986 Jun;115(2):446-58 for details on specimen processing. Figure 5 of this paper is a micrograph of a similarly prepared specimen.
DOI: 10.6075/j0hq3xrh
title: CIL:40668, Drosophila melanogaster. In Cell Image Library

description: Time series were recorded using a Nikon U-2000 inverted microscope equipped with a Nikon 100x NA 1.4 objective lens, Perfect Focus System, CSU-10 spinning disc confocal head (Yokogawa) and Evolve EMCCD camera (Roper Scientific) driven by Nikon Elements software. 
See also: A.L. Jolly et al. 2010 Proc Natl Acad Sci USA 107:12151-12156.
description: Preparation: living tissue
Relation to intact cell: whole mounted tissue
Item type: electron multiplying CCD (EMCCD)
Imaging mode: spinning disk confocal microscopy
Parameter imaged: fluorescence emission
Source of contrast: distribution of a specific protein
Visualization methods: mEOS2FP
description: Time lapse movie prepared from spinning disc confocal images of Drosophila S2 cells stably expressing pMT-Eos2-alpha tubulin. A diagonal ~2.5 micrometer strip was photoconverted and images taken every minute for 20 minutes. Microtubules clearly migrate beyond the confines of the photoconverted strip.
 This movie is part of a grouped set that includes the corresponding time series stack of images.
DOI: 10.6075/j03777kz
title: CIL:40990, Rattus rattus, hepatocyte. In Cell Image Library

description: Original 3.25 in. x 4 in. lantern slides were scanned at 600dpi.
description: Preparation: chemically fixed tissue; tissue in plastic embedment
Relation to intact cell: isolated subcellular component; microtome-sectioned tissue
Item type: film
Imaging mode: transmission electron microscopy (TEM)
Parameter imaged: electron density
Source of contrast: differences in adsorption or binding of stain
Visualization methods: uranyl salt; osmium tetroxide
Data qualification: Processed
description: Transmission electron micrograph of a thin section of plastic-embedded material from the 'rough microsome' fraction of a preparation of rat liver. Subsequent to this early image, 'microsomes' became known as ribosomes, and the subcellular fraction consisting of membrane fragments studded with ribosomes became termed rough endoplasmic reticulum, the site of synthesis of proteins destined for export from the cell.
DOI: 10.6075/j09p30zt
title: CIL:40985, Saccharomyces cerevisiae Y9. In Cell Image Library

description: See: J Sun et al. (2012) Cdc6-induced conformational changes in ORC bound to origin DNA revealed by cryo-electron microscopy. Structure 20:534-544.
description: Item type: computer graphic
Data qualification: Processed
description: Model of the yeast Origin Recognition Complex ORC)complexed with double stranded DNA incorporating a sequence that encodes the replication origin. The 3D structure of the complex with bound DNA was determined by single particle cryo-electron microscopy, and the surface envelope is shown here in grey. The locations of the ORC subunits are shown and superimposed molecular structures in yellow are models of the ORC AAA+ subunits (determined by x-ray crystallography for the related archaeal protein). The ORC is a six-protein machine with a slightly twisted half-ring conformation that is proposed to wrap around and bend approximately 70 base pairs of double stranded DNA (red and blue). When a replication initiator Cdc6 (green) joins ORC, the partial ring is now complete and ready to load another protein onto the DNA. The DNA is modeled into the determined ORC-Cdc6 protein structure. This last protein (not shown) is the enzyme that unwinds the double stranded DNA so each strand can be replicated.
DOI: 10.6075/j0fq9vgr
title: CIL:40982, Arabidopsis thaliana. In Cell Image Library

description: Preparation: living tissue
Relation to intact cell: whole mounted tissue
Item type: recorded image
Imaging mode: fluorescence microscopy; scanned sheet microsopy
Parameter imaged: fluorescence emission
Source of contrast: distribution of a specific protein
Processing history: z-stack reconstruction
description: A video of Arabidopsis thaliana showing a lateral root growing out of the primary root. Arabidopsis thaliana is widely used as a model organism in plant biology. This movie is created from image stacks recorded every 15 minutes over a period of 75 hours using digital scanned light-sheet microscopy. 
 Second Prize, 2011 Olympus BioScapes Digital Imaging 
 Competition©.
DOI: 10.6075/j08914rx
title: CIL:40972, Nostoc commune. In Cell Image Library

description: Darkfield image of spherical colonies of Nostoc commune, a bluegreen alga. Nostoc commune is a terrestrial species of cyanobacteria that in 1988 was found to harbor a previously unidentified UV-A/B absorbing pigment. This protective pigment has enabled them to survive not only while under hydration-related stress, but in areas of extreme UV radiation as well. Nostoc commune is composed of rubbery sheets when hydrated but appear as a crispy sheet when dry. Tenth Prize, 2011 Olympus BioScapes Digital Imaging Competition©.
description: Relation to intact cell: whole mounted tissue
Item type: recorded image
Imaging mode: darkfield illumination
Parameter imaged: elastic scattering of photons
Source of contrast: differences in amount of elastic light scattering
Visualization methods: visualization of contiguous regions
Processing history: unprocessed raw data
DOI: 10.6075/j0610z5g
title: CIL:40970, Pentatomoidea, egg. In Cell Image Library

description: Relation to intact cell: whole mounted tissue
Item type: recorded image
Imaging mode: bright-field microscopy
Parameter imaged: absorption of illumination
Source of contrast: differences in intrinsic optical density
Visualization methods: visualization of contiguous regions
description: Brightfield image of stink bug eggs. Stink bugs are agricultural pests that exist throughout the world and emit a characteristic foul-smelling odor when disturbed. Eggs are laid in clusters (averaging 36 eggs) primarily on leaves and stems but also on pods. Nymphs hatch from these eggs and pass through five instars before becoming adults. Approximately 5 weeks elapse between hatching and adult emergence. Sixth Prize, 2011 Olympus BioScapes Digital Imaging Competition©.
DOI: 10.6075/j0cn738w
title: CIL:40903, uncultured scuticociliate, Conchophthirus curtus, cell by organism, eukaryotic cell, Eukaryotic Protist, Ciliated Protist. In Cell Image Library

description: Conchophthirus was deciliated by calcium ion shock followed by shearing through a micropipette. This revealed the location of the deciliated basal bodies and the cell's surface architecture. In this image of the left side ciliature the thigmotactic ciliature is revealed at the suture line. Also note that, when zoomed in, in this preparation the clathrin coated pits, which are normally an invagination into the cytoplasm have everted following the deciliation procedure, to form a small evagination anterior to the stubb of each deciliated basal body. For more information see: Antipa, G. A. and Small, E. B. 1971. A redescription of Conchophthirus curtus Engelmann, 1862 (Protozoa, Ciliatea). J. Protozool. 18:491-503. This micrograph was taken in 1968 by G. Antipa on a Cambridge Mark IIA operating at 20kV. The negative magnification is 765X. The raw film was scanned with an Epson Perfection V750 Pro. This image is available for quantitative analysis.
description: Preparation: shadowing and plating; chemically fixed tissue; lyophilized specimen; Parducz fixative; Au/Pd metal sputter-coat
Relation to intact cell: whole mounted tissue
Item type: recorded image
Imaging mode: illumination by electrons; secondary_electron imaging
Parameter imaged: illumination by electrons; secondary electron generation; secondary_electron imaging
Source of contrast: detection of electrons
Visualization methods: Deciliation
Processing history: recorded image; film
Data qualification: Raw;spatialmeasurements
DOI: 10.6075/j09k493p
title: CIL:40810, Rattus, hippocampal neuron. In Cell Image Library

description: Preparation: glutaraldehyde fixed tissue; permeabilized tissue; critical_point dried specimen
Relation to intact cell: dispersed cells in vitro
Item type: recorded image
Imaging mode: transmission electron microscopy (TEM)
Parameter imaged: electron density
Source of contrast: differences in deposition of metal shadow
Visualization methods: shadowing and plating
Processing history: colorized
description: Colorized transmission electron micrograph of a platinum replica showing the cytoskeletal organization of stubby dendritic spines in extracted hippocampal neurons after 14 DIV. This imge shows branched actin filaments (cyan) in the spine bases associate with dendritic microtubules (red). Image corresponds to Figure 3b in Mol Biol Cell. 2010 Jan 1;21(1):165-76. The entire panel is available as CIL 40952. The uncolorized image is available as CIL 40804, and the insert (this image) is available as CIL 40810.
description: Please refer to referenced article for details on cell extraction and processing for electron microscopy.
DOI: 10.6075/j0mg7n8z
title: CIL:40971, Hibiscus rosa-sinensis, pollen. In Cell Image Library

description: The image was collected on a ZEISS DSM 960A using a SE detector.
description: Preparation: glutaraldehyde fixed tissue; osmium tetroxide fixed tissue; ethanol dehydration
Relation to intact cell: whole mounted tissue
Item type: recorded image
Imaging mode: scanning electron microscopy (SEM)
Parameter imaged: elastic scattering of electrons
Source of contrast: differences in deposition of metal shadow
Visualization methods: visualization of contiguous regions; shadowing and plating; gold
Processing history: colorized
description: Colorized scanning electron micrograph of pollen (green) from a Hibiscus rosa-sinensis grown in Ecuador, Provincia Pichincha.
DOI: 10.6075/j09g5m5n
title: CIL:40951, Didinium nasutum, Paramecium sp., cell by organism, eukaryotic cell, Eukaryotic Protist, Ciliated Protist. In Cell Image Library

description: Preparation: chemically fixed tissue; lyophilized specimen; Parducz fixative; Au/Pd metal sputter-coat
Relation to intact cell: whole mounted tissue
Item type: recorded image
Imaging mode: illumination by electrons; secondary_electron imaging
Parameter imaged: illumination by electrons; secondary electron generation; secondary_electron imaging
Source of contrast: detection of electrons
Visualization methods: shadowing and plating
Processing history: recorded image; film
Data qualification: Raw
description: Didinium captures Paramecium. A moment after initial contact when toxicysts enter Paramecium. The strand of toxicysts can be seen between the two organisms, and Didinium will use the anchored toxicysts to reel in Paramecium to the awaiting proboscis which is opening to accept its prey. Also showing metachronous waves of cilia within the two characteristic ciliary girdles of Didinium nasutum; the waves on Paramecium may be paralyzed due to the effects of the attached toxicysts. This micrograph was taken in 1968 by G. Antipa on a Cambridge Mark IIA operating at 20kV. The negative magnification is 485X. Further details are available at Wessenberg, H. and Antipa, G. 1970. Capture and ingestion of Paramecium by Didinium nasutum. J. Protozool. 17:250-270.
DOI: 10.6075/j0jh3k16
title: CIL:40967, Rattus, glial cell, neuron. In Cell Image Library

description: Widefield multiphoton fluorescence image of Rat hippocampus stained to reveal the distribution of glia (cyan), neurofilaments (green) and cell nuclei (yellow). 2nd Prize, 2010 Olympus BioScapes Digital Imaging Competition©.
description: Relation to intact cell: sectioned tissue
Item type: recorded image
Imaging mode: multi-photon microscopy
Parameter imaged: fluorescence emission
Source of contrast: distribution of epitope
Visualization methods: primary antibody plus labeled secondary antibody
DOI: 10.6075/j0gf0sv0
title: CIL:40904, uncultured scuticociliate, Conchophthirus curtus, cell by organism, eukaryotic cell, Eukaryotic Protist, Ciliated Protist. In Cell Image Library

description: Conchophthirus was deciliated by calcium ion shock followed by shearing through a micropipette. This revealed the location of the deciliated basal bodies and the cell's surface architecture. In this image of the suture line where the left and right side rows of basal bodies converge, one can observe the distribution of the ciliature, and at the suture line the location of the deciliated caudal basal bodies to which 10-20 long caudal cilia are attached. These cilia seem to act as a rudder to help guide the organism as the active beating cilia of locomotor cilia propagate the organism through the media. Also note that, when zoomed in, in this preparation the clathrin coated pits, which are normally an invagination into the cytoplasm have everted following the deciliation procedure, to form a small evagination anterior to the stubb of each deciliated basal body. For more information see: Antipa, G. A. and Small, E. B. 1971. A redescription of Conchophthirus curtus Engelmann, 1862 (Protozoa, Ciliatea). J. Protozool. 18:491-503. This micrograph was taken in 1968 by G. Antipa on a Cambridge Mark IIA operating at 20kV. The negative magnification is 765X. The raw film was scanned with an Epson Perfection V750 Pro. This image is available for quantitative analysis. In order to be viewed properly, the micrograph needs to be flipped either vertically or horizontally as it is presented here in the inverted position
description: Preparation: shadowing and plating; chemically fixed tissue; lyophilized specimen; Parducz fixative; Au/Pd metal sputter-coat
Relation to intact cell: whole mounted tissue
Item type: recorded image
Imaging mode: illumination by electrons; secondary_electron imaging
Parameter imaged: illumination by electrons; secondary electron generation; secondary_electron imaging
Source of contrast: detection of electrons
Visualization methods: Deciliation
Processing history: recorded image; film
Data qualification: Raw;spatialmeasurements