cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6075/j0668c56
title: CIL:36699, Paramecium multimicronucleatum, cell by organism, eukaryotic cell, Eukaryotic Protist, Ciliated Protist. In Cell Image Library

description: A view of the right side of the cytopharynx showing the groove and its associated microtubules running longitudinally along the groove (for cross sections see Allen, J. Ultrastruct. Res. 63:64-78, 1980, Fig. 4) and bundles of postoral microtubules on its cytosolic side. This cell was fed latex beads and treated with DMSO and then incubated in DAB so that discoidal vesicles appear electron opaque. Some discoidal vesicles can be found along the longitudinally oriented microtubules of the groove. The nascent food vacuole has many acidosomes docked at its surface even at the right side of the cytopharynx. TEM taken on 9/14/82 by R. Allen with Hitachi HU11A operating at 75kV. Neg. 8,500X. Bar = 0.5µm.
description: Preparation: glutaraldehyde fixed tissue; osmium tetroxide fixed tissue; tissue in epoxy resin embedment; microtome-sectioned tissue
Relation to intact cell: microtome-sectioned tissue
Item type: transmission electron microscopy (TEM); illumination by electrons
Imaging mode: detection of electrons; film
Parameter imaged: electron density
Source of contrast: stain with broad specificity
Visualization methods: stain with broad specificity; osmium tetroxide; uranyl salt; lead salt
Processing history: recorded image; film; Print from negative scanned for Photoshop.
Data qualification: Processed
description: Standard glutaraldehyde fixation followed by osmium tetroxide, dehydrated in alcohol and embedded in an epoxy resin. Microtome sections prepared at approximately 75nm thickness. The negative was printed to paper and the image was scanned to Photoshop. This digitized image is available for qualitative analysis. Additional information available at (http://www5.pbrc.hawaii.edu/allen/).
DOI: 10.6075/j0k07369
title: CIL:36701, Paramecium multimicronucleatum, cell by organism, eukaryotic cell, Eukaryotic Protist, Ciliated Protist. In Cell Image Library

description: Preparation: freeze_fracture/freeze_etch
Relation to intact cell: shadowing and plating; freeze_fracture/freeze_etch; isolated subcellular component
Item type: transmission electron microscopy (TEM); illumination by electrons
Imaging mode: electron density
Parameter imaged: elastic scattering of electrons; electron density; elevation
Source of contrast: differences in deposition of metal shadow
Visualization methods: transmission electron microscopy (TEM)
Processing history: freeze_fracture/freeze_etch; shadowing and plating; recorded image; film; Print of negative scanned for Photoshop
Data qualification: Processed
description: The E-fracture faces of the plasma membrane and cytopharyngeal membranes are continuous but differ in appearance since the cytopharyngeal membrane is studded with IMPs while the plasma membrane has few IMPs. A portion of the plasma membrane is covered by the P-face of the outer alveolar sac membrane which also has many IMPs. The alveolus does not cover the cytopharynx membrane. Four parasomal sacs along the cytopharyngeal edge of the quadrulus are exposed. Details of the attachment of the cytopharyngeal ribbons to the cytopharyngeal membrane are shown including part of five fractured ribbons and the two accessory microtubules lying just posterior to each cytopharyngeal ribbon that are also bound to the membrane. A fiber actually links the ribbon to the membrane. (For details see Allen, J. Cell Biol. 63:904-922, 1974. TEM taken on 5/18/88 by C. Schroeder with Zeiss 10A operating at 80kV. Neg. 40,000X. Bar = 0.1µm.
DOI: 10.6075/j0wh2pb6
title: CIL:40396, Vibrio cholerae. In Cell Image Library

description: Relevant reference: T.J. Kirn, M.J. Lafferty, C.M.P Sandoe and R.K. Taylor, 2000, "Delineation of pilin domains required for bacterial association into microcolonies and intestinal colonization", Molecular Microbiology, Vol. 35(4):896-910

Complete specimen preparation protocol available at http://remf.dartmouth.edu:8080/EM-Wiki

Image collected on a Zeiss DSM 962 SEM
description: Scanning electron microscope image of Vibrio cholerae bacteria, which infect the digestive system.This image is part of an image group that includes CIL:40395-40399.
description: Preparation: glutaraldehyde fixed tissue
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 adsorption or binding of stain
Visualization methods: osmium tetroxide
Processing history: unprocessed raw data
DOI: 10.6075/j0j67g8h
title: CIL:40400, Sus scrofa domestica, kidney epithelial cell. In Cell Image Library

description: Living LLCPK1 cells expressing GFP-alpha-tubulin were observed using a Nikon Eclipse TE 300 microscope equipped with a 100x phase NA 1.4 objective lens, and images captured at 2 sec intervals with a Perkin Elmer spinning disc confocal scan head and a cooled CCD camera
See also NM Rusan et al. 2002 Reorganization of the microtubule array in prophase/prometaphase requires cytoplasmic dynein-dependent microtubule transport. J Cell Biol 158:997-1003.
description: Stack of time series images showing the change in microtubule distribution in cultured porcine kidney epithelial cells (LLCPK1) stably expressing GFP-alpha tubulin during the progression from prophase to prometaphase. The cytoskeleton is reorganized with disassembly of individual microtubules and formation of microtubule bundles, causing an inward collapse of the microtubule array prior to the formation of the mitotic spindle.
 A movie created from the stack is grouped with the image.
description: Preparation: living tissue
Relation to intact cell: whole mounted tissue
Item type: charge coupled device (CCD)
Imaging mode: spinning disk confocal microscopy
Parameter imaged: fluorescence emission
Source of contrast: distribution of a specific protein
Visualization methods: EGFP
Data qualification: Processed
DOI: 10.6075/j0kw5fcw
title: CIL:40394, Tradescantia virginiana. In Cell Image Library

description: Preparation: glutaraldehyde fixed tissue; critical_point dried specimen; ethanol dehydration
Relation to intact cell: sectioned tissue
Item type: recorded image
Imaging mode: scanning electron microscopy (SEM)
Parameter imaged: elastic scattering of electrons
Source of contrast: differences in adsorption or binding of stain
Visualization methods: osmium tetroxide; shadowing and plating
Processing history: unprocessed raw data
description: Image collected on a Zeiss DSM 962 SEM. Complete specimen preparation protocol available at:
http://remf.dartmouth.edu:8080/EM-Wiki/36
description: Scanning electron microscope image of a cross-section through a Tradescantia virginiana stem. Image shows vascular bundles in a ring, with a central pith.This image is part of a group on botanical stems (CIL:40378-40395).
DOI: 10.6075/j0td9w40
title: CIL:40417, Saccharomyces cerevisiae, BY4716. In Cell Image Library

description: Transmission electron micrograph of crescent-shaped and circularized organelles from a BY4716 wildtype cell treated with 60¬µM sertraline. (20,000X).This image is part of an image group of cisternae images, CIL: 40417-40423. The image contributor encourages readers to add comments regarding whether these structures Golgi or Golgi-derived.
description: Preparation: glutaraldehyde fixed tissue; tissue in plastic embedment
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: This group of images contains representative whole-cell images and high-magnification zooms of organelle structures of interest. All cells were grown in liquid rich media (YPD pH6.5) at 30C with aerated shaking, and cultures were sampled in mid-logarithmic phase. Treated cells were exposed to 60µM antidepressant sertraline (Zoloft®) for 45 minutes.
DOI: 10.6075/j0cn72s6
title: CIL:40416, Saccharomyces cerevisiae, chc1 mutant. In Cell Image Library

description: Preparation: glutaraldehyde fixed tissue; tissue in plastic embedment
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: This group of images contains representative whole-cell images and high-magnification zooms of organelle structures of interest. All cells were grown in liquid rich media (YPD pH6.5) at 30C with aerated shaking, and cultures were sampled in mid-logarithmic phase. Treated cells were exposed to 60µM antidepressant sertraline (Zoloft®) for 45 minutes.
description: A transmission electron micrograph of a representative untreated chc1 mutant cell. CHC1 encodes clathrin heavy chain, which trimerizes to form triskelia that coat vesicles. chc1 mutant cells exhibit a vacuolar fragmentation phenotype. (8,000X). CIL 40415 is a sertraline treated chc1 mutant cell.
DOI: 10.6075/j0hx1bg6
title: CIL:40413, Saccharomyces cerevisiae, BY4716. In Cell Image Library

description: Preparation: glutaraldehyde fixed tissue; tissue in plastic embedment
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: Transmission electron micrograph of a mature autophagosome from a BY4716 wildtype cell treated with 60¬µM sertraline. (40,000X). CIL 40414 is a similarly treated cell.
description: This group of images contains representative whole-cell images and high-magnification zooms of organelle structures of interest. All cells were grown in liquid rich media (YPD pH6.5) at 30C with aerated shaking, and cultures were sampled in mid-logarithmic phase. Treated cells were exposed to 60µM antidepressant sertraline (Zoloft®) for 45 minutes.
DOI: 10.6075/j0319trx
title: CIL:40411, Saccharomyces cerevisiae, ARF1 mutant. In Cell Image Library

description: Preparation: glutaraldehyde fixed tissue; tissue in plastic embedment
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: Transmission electron micrograph of a representative sertraline-treated arf1Œî mutant cell. ARF1 encodes a small regulatory GTPase that nucleates vesicle formation in the early secretory pathway. The circular organelles appear to be aberrant Golgi. (5,000X). The untreated control is CIL 40412.
description: This group of images contains representative whole-cell images and high-magnification zooms of organelle structures of interest. All cells were grown in liquid rich media (YPD pH6.5) at 30C with aerated shaking, and cultures were sampled in mid-logarithmic phase. Treated cells were exposed to 60µM antidepressant sertraline (Zoloft®) for 45 minutes.
DOI: 10.6075/j02v2ffn
title: CIL:40393, Helianthus annuus. In Cell Image Library

description: Preparation: glutaraldehyde fixed tissue; critical_point dried specimen; ethanol dehydration
Relation to intact cell: sectioned tissue
Item type: recorded image
Imaging mode: scanning electron microscopy (SEM)
Parameter imaged: elastic scattering of electrons
Source of contrast: differences in adsorption or binding of stain
Visualization methods: osmium tetroxide; shadowing and plating
Processing history: unprocessed raw data
description: Scanning electron microscope image of a longitudinal section of a Helianthus annuus (sunflower) stem showing vascular bundles.This image is part of a group on botanical stems (CIL:40378-40395).
description: Image collected on a Zeiss DSM 962 SEM. Complete specimen preparation protocol available at:
http://remf.dartmouth.edu:8080/EM-Wiki/36
DOI: 10.6075/j0gf0stj
title: CIL:40392, Helianthus annuus. In Cell Image Library

description: Image collected on a Zeiss DSM 962 SEM. Complete specimen preparation protocol available at:
http://remf.dartmouth.edu:8080/EM-Wiki/36
description: Scanning electron microscope image of Helianthus annuus (sunflower) stem epidermal surface, showing a trichome (finger-like projection) and a stomata (pore used for gas exchange).This image is part of a group on botanical stems (CIL:40378-40395).
description: Preparation: glutaraldehyde fixed tissue; critical_point dried specimen; ethanol dehydration
Relation to intact cell: sectioned tissue
Item type: recorded image
Imaging mode: scanning electron microscopy (SEM)
Parameter imaged: elastic scattering of electrons
Source of contrast: differences in adsorption or binding of stain
Visualization methods: osmium tetroxide; shadowing and plating
Processing history: unprocessed raw data
DOI: 10.6075/j0qv3ks2
title: CIL:40391, Helianthus annuus. In Cell Image Library

description: Preparation: glutaraldehyde fixed tissue; critical_point dried specimen; ethanol dehydration
Relation to intact cell: sectioned tissue
Item type: recorded image
Imaging mode: scanning electron microscopy (SEM)
Parameter imaged: elastic scattering of electrons
Source of contrast: differences in adsorption or binding of stain
Visualization methods: osmium tetroxide; shadowing and plating
Processing history: unprocessed raw data
description: Scanning electron microscope image of a cross-section through a Helianthus annuus (sunflower) vascular bundle, showing the vascular cambium between the phloem and xylem.This image is part of a group on botanical stems (CIL:40378-40395).
description: Image collected on a Zeiss DSM 962 SEM. Complete specimen preparation protocol available at:
http://remf.dartmouth.edu:8080/EM-Wiki/36
DOI: 10.6075/j02f7mvv
title: CIL: 50713, FIB-SEM Dataset of anti-PKHD1L1 Immuno-Gold Labeled Outer Hair Cell Stereocilia Bundles: 5.1_Cell_5_Raw_Image_Stack. In Cell Image Library

description: Images were acquired with FEI Helios FIB-SEM, using backscatter detector from an epoxy resin embedded inner ear Organ of Corti sample. 
5.1_Cell_5_Raw_Image_Stack is a multipage TIFF file consisting of 233 individual EM sections acquired at 20 nm milling step, resulting in 2.75×2.75×20 nm³ voxel size. 
This file is a part of Dataset 5, comprised of files related to the Cell #5 of current study. The numbering order of the files reflects the order of operations performed during the analysis.
description: FIB-SEM Dataset of anti-PKHD1L1 Immuno-Gold Labeled Outer Hair Cell Stereocilia Bundles. Postnatal day 4 mouse Inner Ear Organ of Corti labeled with anti-PKHD1L1 antibody (10 nm gold beads). The dataset represents the apical end of the Outer Hair Cell with the stereocilium bundle. Images were acquired with FEI Helios FIB-SEM, using backscatter detector from an epoxy resin embedded inner ear Organ of Corti sample.
description: Imaging mode: Serial Electron Microscopy; Focused Ion Beam Scanning Electron Mictoscopy (FIB-SEM)
Visualization methods: Heavy metal stain (Osmium Tetroxide, Potassium Ferrocyanide, Tannic Acid); Immunogold labeling with 10 nm gold beads
DOI: 10.6075/j0zp45js
title: CIL: 50708, FIB-SEM Dataset of anti-PKHD1L1 Immuno-Gold Labeled Outer Hair Cell Stereocilia Bundles. In Cell Image Library

description: FIB-SEM Dataset of anti-PKHD1L1 Immuno-Gold Labeled Outer Hair Cell Stereocilia Bundles. Postnatal day 4 mouse Inner Ear Organ of Corti labeled with anti-PKHD1L1 antibody (10 nm gold beads). The dataset represents the apical end of the Outer Hair Cell with the stereocilium bundle. Images were acquired with FEI Helios FIB-SEM, using backscatter detector from an epoxy resin embedded inner ear Organ of Corti sample.
description: Images were acquired with FEI Helios FIB-SEM, using backscatter detector from an epoxy resin embedded inner ear Organ of Corti sample. 
4.5_Cell_4_Stack_Filtered is a multipage TIFF file consisting of 368 individual EM sections (1.95×1.95×15 nm³ voxel size) filtered with slope map filter (unit: 8 &gt; scale: 10), unsharp filter (unit: 8 &gt; kernel: 3D, 5 &gt; standard deviation: 1.0 &gt; unsharp factor: 0.0), and median filter (unit: 8 &gt; kernel: 3D, cube, 3).
This file is a part of Dataset 4, comprised of files related to the Cell #4. The numbering order of the files reflects the order of operations performed during the analysis. Note: The data acquisition session was interrupted after frame #224, and later resumed as a separate imaging session. This resulted in two stack files, concatenated into a single multipage TIFF file during data analysis.
description: Imaging mode: DICM
Visualization methods: Spinning disc confocal DICM & widefield DICM Using a Nikon TiE microscope equipped with a 40x, 0.95 N.A. objective and a Hamamatsu ORCA-Flash 4.0 V3 Digital CMOS camera, or a Nikon TiE spinning-disc confocal microscope equipped with a Yokogawa CSU-X1 scanning unit, an Andor iXon 888 EMCCD camera, and a 60x, 1.3 N.A. water-immersion objective or a 40x, 0.95 N.A. objective
DOI: 10.6075/j090233k
title: CIL:40387, Psidium guajava. In Cell Image Library

description: High magnification scanning electron micrograph of a cross-section through a Psidium guajava vascular bundle. The image shows the phloem and xylem, with the vascular cambiun in-between.This image is part of a group on botanical stems (CIL:40378-40395).
description: Preparation: glutaraldehyde fixed tissue; critical_point dried specimen; ethanol dehydration
Relation to intact cell: sectioned tissue
Item type: recorded image
Imaging mode: scanning electron microscopy (SEM)
Parameter imaged: elastic scattering of electrons
Source of contrast: differences in adsorption or binding of stain
Visualization methods: osmium tetroxide; shadowing and plating
Processing history: unprocessed raw data
description: Image collected on a Zeiss DSM 962 SEM. Complete specimen preparation protocol available at:
http://remf.dartmouth.edu:8080/EM-Wiki/36
DOI: 10.6075/j00v8c4f
title: CIL:40383, Oryza sativa. In Cell Image Library

description: Image collected on a Zeiss DSM 962 SEM. Complete specimen preparation protocol available at:
http://remf.dartmouth.edu:8080/EM-Wiki/36
description: Preparation: glutaraldehyde fixed tissue; critical_point dried specimen; ethanol dehydration
Relation to intact cell: sectioned tissue
Item type: recorded image
Imaging mode: scanning electron microscopy (SEM)
Parameter imaged: elastic scattering of electrons
Source of contrast: differences in adsorption or binding of stain
Visualization methods: osmium tetroxide; shadowing and plating
Processing history: unprocessed raw data
description: Scanning electron microscope image of a cross-section through an Oryza sativa (Rice) stem, showing the vascular bundles arranged in two rings and central pore (usually filled with mucilage, but collapsed in this image).This image is part of a group on botanical stems (CIL:40378-40395).
DOI: 10.6075/j0gx49xf
title: CIL:40381, Solenostemon scutellarioides, epidermal cell. In Cell Image Library

description: Image collected on a Zeiss DSM 962 SEM. Complete specimen preparation protocol available at:
http://remf.dartmouth.edu:8080/EM-Wiki/36
description: Scanning electron microscope image of the epidermal surface of a Solenostemon scutellarioidesi (coleus) stem. The image shows two trichomes (hair-like projections).This image is part of a group on botanical stems (CIL:40378-40395).
description: Preparation: glutaraldehyde fixed tissue; critical_point dried specimen; ethanol dehydration
Relation to intact cell: sectioned tissue
Item type: recorded image
Imaging mode: scanning electron microscopy (SEM)
Parameter imaged: elastic scattering of electrons
Source of contrast: differences in adsorption or binding of stain
Visualization methods: osmium tetroxide; shadowing and plating
Processing history: unprocessed raw data
DOI: 10.6075/j0765d4b
title: CIL:40407, keratinocyte. In Cell Image Library

description: 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: 4',6-diamidino-2-phenylindole (DAPI); probe for mitochondria
Processing history: projection; rendering
description: A confocal image of dividing keratinocyte cells labelled with mitotracker (red), tubulin (green) and nuclei (Dapi-blue). Cells were part of a study of the effect of Papilloma viruses in keratinocytes.
DOI: 10.6075/j0w66jk3
title: CIL:40405, Convallaria majalis. In Cell Image Library

description: Rendered 3D projection of a confocal z-series taken of rhizome (underground portion of the stem) of Convallari majalis (Lily of the Valley). The green objects represent reconstructed chloroplasts; cell walls are shown in red.
description: Images were acquired with the Leica TCS AOBS SP2 confocal microscopy using a 63x oil immersion objective (NA 1.40) and an argon/krypton ion laser at wavelengths of 488 nm and an helium/neon 543 nm laser. The fluorescence signals were detected at 500-541 nm and 604-674 nm respectively. Z-series profiles of 30 optical sections were collected at intervals of 1.42 micrometers with a line average of 4 to reduce noise. Maximum projection of the series was applied. After confocal acquisition, z-stack was analysed with IMARIS software to adjust colours and to create 3D renders of chloroplasts.
description: Relation to intact cell: whole mounted tissue
Item type: recorded image
Imaging mode: confocal microscopy
Parameter imaged: fluorescence emission
Source of contrast: distribution of epitope
Processing history: 3D volume render
DOI: 10.6075/j0m044qm
title: CIL:404, Mus musculus, skeletal muscle cell. In Cell Image Library

description: Thin section electron microscopy of the gastrocnemius (skeletal) muscle from the delta-sarcoglycan mouse. 

Sample was viewed with a Hitachi 7600 electron microscope (accelerating voltage 80 KV) and imaged with an AMT digital camera. 

This image is part of a set of images of the gastrocnemius muscle from the delta-sarcoglycan knockout mouse. A set of images of wild type mouse gastrocnemius from this same study also are included in The CELL: an image library.

Reference: Nat Med. 2008 Apr;14(4):442-7. 
Genetic and pharmacologic inhibition of mitochondrial-dependent necrosis attenuates muscular dystrophy.
Millay DP, Sargent MA, Osinska H, Baines CP, Barton ER, Vuagniaux G, Sweeney HL, Robbins J, Molkentin JD (tissue preparation described in Fewell JG, et al. A treadmill exercise regimen for identifying cardiovascular phenotypes in transgenic mice. Am J Physiol. 1997;273:H1595–H1605)
description: Preparation: glutaraldehyde fixed tissue; osmium tetroxide fixed tissue
Relation to intact cell: microtome-sectioned tissue
Item type: recorded image
Imaging mode: transmission electron microscopy (TEM)
Parameter imaged: electron density
Source of contrast: uranyl salt; lead salt
Visualization methods: detection of electrons
Processing history: unprocessed raw data