cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6075/j0dn43qw
title: CIL:37151, Cavia porcellus, pancreatic cell. In Cell Image Library

description: Transmission electron micrograph of cell fractionation of guinea pig pancreas microsomes. Rough microsomes, the cell fractionation equivalent of the rough endoplasmic reticulum with bound ribosomes in intact cells, were extensively used to determine the mechanism of translocation of newly synthesized exportable proteins across the ER membrane. The culmination of these studies on rough microsomes was the elucidation of the "Signal Hypothesis". Image made available by James D. Jamieson and the Department of Cell Biology, Yale University School of Medicine.
description: Preparation: cell fractionation
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
description: Original 3.25 in. x 4 in. lantern slides were scanned at 600dpi.
Relevant citations:
Siekevitz, P. and G. E. Palade.1958. J. Biochem. Biophys. Cytol. 4:309-318. 
Palade, G.E., and P. Siekevitz. 1956. J. Biochem. Biophys. Cytol. 2:671-690.
Palade. G.E. 1955. J. Biochem. Biophys. Cytol. 1:59-68.
Redman, C.M., P. Siekevitz, and G.E. Palade. 1966. J. Biol. Chem. 241:1150-1158.
Sabatini, D.D. and G. Blobel. 1970. J. Cell. Biol. 45:146-157.
DOI: 10.6075/j05719qx
title: CIL:37196, Cavia porcellus, uterus cell. In Cell Image Library

description: References:
Palade, G.E. 1952. J. Exp. Med. 95:285-298.
Palade, G.E. 1952. Anat. Rec. 114:427-451.
Sabatini, D.D, K. Bensch and R.J. Barrnett. 1963. J. Cell. Bio. 17:19-58. 
Original 3.25 in. x 4 in. lantern slides were scanned at 600dpi. Original magnification X28,000.
description: Preparation: osmium tetroxide fixed tissue
Relation to intact cell: sectioned tissue
Item type: recorded image
Imaging mode: transmission electron microscopy (TEM)
Parameter imaged: electron density
Source of contrast: differences in adsorption or binding of stain
description: Transmission electron micrograph of mitochondria from a guinea pig uterus. The use of osmium tetroxide as a fixative for electron microscopy was first described by Dr. Palade at the Rockefeller. Another major advance in fixation for electron microscopy was done at Yale by David Sabatini who described the use of glutaraldehyde which not only preserved ultrastructure, but enzymatic activities which opened up the possibility of EM localization of enzymatic function in cells. Image made available by James D. Jamieson and the Department of Cell Biology, Yale University School of Medicine.
DOI: 10.6075/j0vx0f9x
title: CIL:11052, Taricha granulosa, Notophthalmus viridescens, oocyte. In Cell Image Library

description: Early transmission electron micrographs showing pore details in negatively stained preparations of nuclear envelopes. Upper panel shows the pronounced 8-fold symmetry in the closely spaced pores of the oocyte of the newt Taricha granulosa. Lower panel depicts the oocyte envelope of the newt Notophthalmus viridescens revealing 8-fold symmetry upon rotational averaging (inset). (Upper micrograph from A. Faberge (1973) Z. zellforsch. 136: 183-190, reprinted with permission as Fig. 151; lower micrograph from Gall (1967) J. Cell Biol 32: 391, reprinted with permission as Fig. 152 from Chapter 4 (Nucleus) of 'The Cell, 2nd Ed.' by Don W. Fawcett M.D. A PDF copy of the accompanying chapter is available on the ASCB's BioEDUCATE website.
description: See: AC Faberge 1973 Direct demonstration of 8-fold symmetry in nuclear pores. Z Zellforsch Mikrosk Anat 136:183-190.
J. Gall 1967 Octagonal nuclear pores J Cell Biol 32:391-399
description: Preparation: unembedded tissue
Relation to intact cell: isolated subcellular component
Item type: film
Imaging mode: transmission electron microscopy (TEM); detection of electrons
Parameter imaged: electron density
Source of contrast: differences in adsorption or binding of stain
Visualization methods: negative staining; tungsten compound
Processing history: Image extracted from .pdf file of 'The Cell'
Data qualification: Processed
DOI: 10.15468/dl.6x75ab
title: Occurrence Download

description: A dataset containing 4839 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Observation, Machine Observation, Human Observation)",
 "OccurrenceStatus is Present",
 "TaxonKey is Glycine max"
 ]
}

 The dataset includes 4839 records from 129 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009713-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6075/j0hq3xq2
title: CIL:11110, Parophrys vetulus, epidermal cell. In Cell Image Library

description: Preparation: critical_point dried specimen
Item type: scanning electron microscopy (SEM)
Imaging mode: illumination by electrons; secondary_electron imaging
Parameter imaged: secondary electron generation
Data qualification: Processed
description: of 'The Cell, 2nd Ed.' by Don W. Fawcett M.D. Scanning electron micrograph of the epidermal surface of the flatfish sole Parophrys detulus shows a labyrinth of surface ridges. Image from Fahrenbach, W., Knutsen, D.D. (1975). J. Invest. Dermatol. 65:39-44, reprinted by permission from Macmillan Publishers Ltd as Figure 41 from Chapter 2 (Specializations Of The Free Surface) of 'The Cell, 2nd Ed.' by Don W. Fawcett M.D. A PDF copy of the accompanying chapter is available on the ASCB's BioEDUCATE website.
DOI: 10.5281/zenodo.17493210
title: Stainless Steel vs Calcium Fluoride for biomedical Raman Spectroscopy

description: Dataset for the publication Stainless Steel vs Calcium Fluoride for biomedical Raman Spectroscopy.

The dataset contains two main folders containing data which has been optimised for CaF2 and matched data (contiguous slices of FFPE colonic tissue) optimised for stainless steel (SS). Within each folder are 18 slides, each of which contain two 'images'. Each image refers to a collection of point spectra taken from a single sample. Inside each image are three files CaF, CaF2 and SS. The CaF data refers to a standard dewaxing protocol which dis not remove all wax. CaF2 is an extended dewaxing protocol. SS had only the standard dewaxing protocol.
DOI: 10.5281/zenodo.17493209
title: Stainless Steel vs Calcium Fluoride for biomedical Raman Spectroscopy

description: Dataset for the publication Stainless Steel vs Calcium Fluoride for biomedical Raman Spectroscopy.

The dataset contains two main folders containing data which has been optimised for CaF2 and matched data (contiguous slices of FFPE colonic tissue) optimised for stainless steel (SS). Within each folder are 18 slides, each of which contain two 'images'. Each image refers to a collection of point spectra taken from a single sample. Inside each image are three files CaF, CaF2 and SS. The CaF data refers to a standard dewaxing protocol which dis not remove all wax. CaF2 is an extended dewaxing protocol. SS had only the standard dewaxing protocol.
DOI: 10.5281/zenodo.17288090
title: Notas de leitura do processo "Cesión de Parcelas para Centros de Salud en Écija e Isla Redonda [1984]" existente no Archivo Municipal de Écija, em Écija (Sevilla).

description: Registo efetuado em 2024.08.30 no âmbito do projeto de investigação ReARQ.IB – Built Environment Knowledge for Resilient, Sustainable Communities: Understanding Everyday Modern Architecture and Urban Design in the Iberian Peninsula (1939-1985) (ERC GA949686) e publicado online em https://arquitecturaaqui.eu/pt/documentacao/processos/48932/cesion-de-parcelas-para-centros-de-salud-en-ecija-e-isla-redonda. 

Dados exportados da plataforma Arquitectura Aqui (https://arquitecturaaqui.eu), repositório do referido projeto, em outubro de 2025.
DOI: 10.5281/zenodo.17288089
title: Notas de leitura do processo "Cesión de Parcelas para Centros de Salud en Écija e Isla Redonda [1984]" existente no Archivo Municipal de Écija, em Écija (Sevilla).

description: Registo efetuado em 2024.08.30 no âmbito do projeto de investigação ReARQ.IB – Built Environment Knowledge for Resilient, Sustainable Communities: Understanding Everyday Modern Architecture and Urban Design in the Iberian Peninsula (1939-1985) (ERC GA949686) e publicado online em https://arquitecturaaqui.eu/pt/documentacao/processos/48932/cesion-de-parcelas-para-centros-de-salud-en-ecija-e-isla-redonda. 

Dados exportados da plataforma Arquitectura Aqui (https://arquitecturaaqui.eu), repositório do referido projeto, em outubro de 2025.
DOI: 10.5517/ccdc.csd.cc2l7sk6
title: CCDC 2390768: Experimental Crystal Structure Determination

description: Related Article: Giuseppe Pileio, Dolnapa Yamano, Craig Eccles, Graham J. Tizzard, Sam Thompson|2025|CSD Communication|||
description: Related Article: Giuseppe Pileio, Dolnapa Yamano, Craig D. Eccles, Graham J. Tizzard, Sam Thompson
|2025|Frontiers in Chemistry|12|1511720|doi:10.3389/fchem.2024.1511720
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.6075/j0zp45w8
title: CIL: 54491, Homo sapiens, astrocyte. In Cell Image Library

description: Imaging mode: bright-field microscopy
Visualization methods: GFAP IHC using HRP/DAB
description: Pathology load assessment of de-identified, human, post-mortem Alzheimer's disease and age-matched non-symptomatic donor prefrontal cortex brain tissue. We used these imaging data to inform donor stratification when we generated a large single nuclei RNA sequencing (snRNA-seq) dataset. Given we generated both imaging and snRNA-seq datasets the same location/piece of tissue for each donor, this gives us an unprecedented platform to evaluate cell type/subpopulation transcriptomes and relate them directly to their respective tissue microenvironments.
description: 5 um sections of FFPE prefrontal cortex tissue from post-mortem, human Alzheimer's disease donor labeled for glial fibrillary acidic protein (GFAP), a protein commonly used to identify astrocytes.
DOI: 10.6075/j0sx6c5z
title: CIL:36628, 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: A view of the ER on which IMPs are organized into lines, arcs, and circles indicating organization of proteins within the ER membrane and possibly peripheral proteins attached to its cytosolic surface. TEM taken on 3/4/97 by R. Allen with Zeiss 10A operating at 80kV. Neg. 15,900X. Bar = 0.5µm.
DOI: 10.6075/j0b27t4m
title: CIL:38999. In Cell Image Library

description: B0001877 Scanning probe pic of myosin molecule. Wellcome Images available under the following creative commons usage http://creativecommons.org/licenses/by-nc-nd/2.0/uk/
description: Scanning probe/Atomic Force Microscope image (contact mode) of a molecule of the muscle protein myosin (green on yellow background). The two heads and tail of the molecule are clearly resolved.
description: Relation to intact cell: isolated subcellular component
Item type: recorded image
Imaging mode: atomic force microscopy
Parameter imaged: elevation
Source of contrast: differences in height
Visualization methods: visualization of contiguous regions
Processing history: colorized
DOI: 10.5517/ccdc.csd.cc2n8qsg
title: CCDC 2451256: Experimental Crystal Structure Determination

description: Related Article: Shuhai Qiu, Junzhi Liu|2025|Beilstein J.Org.Chem.|21|1917|doi:10.3762/bjoc.21.149
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2myxzh
title: CCDC 2441838: Experimental Crystal Structure Determination

description: Related Article: Xin Li, Nian-Ling Li, Wen-Xing Wang, Xiaojiao Yang, Xiaoping Li, Jianyu Wei, Xian-Kai Wan|2025|Chem.Mater.|||doi:10.1021/acs.chemmater.5c02165
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.6075/j0p84b2z
title: CIL:12036, Paramecium multimicronucleatum, cell by organism, eukaryotic cell, Eukaryotic Protist, Ciliated Protist. In Cell Image Library

description: A segment of the edge of the axoneme showing the outer axonemal dynein arms that extend from the A-subfiber of a doublet to bind to the B subfiber of the adjacent doublet. TEM taken on 4/21/88 by C. Schroeder with Zeiss 10A operating at 80kV. Neg. 31,500X. The raw film was scanned with an Epson Perfection V750 Pro. This image is best used for quantitative analysis.
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; unprocessed raw data
Data qualification: Raw;spatialmeasurements
DOI: 10.6075/j0cv4h6w
title: CIL: 51819, Mus musculus, RAW 264.7 TIB-71. In Cell Image Library

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
description: A novel cell population analysis to quantify both initial and long-term drug effects, namely pseudopod adaptation and recovery following an initial drug-induced perturbation, adding drug slowly in 1/4 increments over 90 minutes.
description: ~1200 cells were imaged on glass. More gradual additions of drug or carrier were carried out in four equal increments at 0, 30, 60, 90 min, together yielding the same final drug concentration indicated in rapid addition studies. The subpopulation of ~100 cells with extended, leading edge pseudopods at t = 0 were imaged and counted in each unit area at the indicated timepoints during a 125 min observation period T=37C

Images are provided as uncorrected, 16 bit .nd2 files to preserve all original data. To view these .nd2 files:
1. Download ImageJ viewer at (https://imagej.nih.gov/ij/download.html)
2. Download the BioFormats.jar package at (https://www.openmicroscopy.org/bio-formats/downloads/)
3. Open the ImageJ directory after installation and drag the extracted BioFormats.jar package into the "Plugins" subdirectory
4. Open an .nd2 image using imageJ and select opening options when prompted, if desired. If no modifications are desired, select "OK"
5. The 16 bit image will typically look dark and will require brightness adjustment.
6. In the ImageJ toolbar, select Image &gt;&gt; Adjust &gt;&gt; Brightness/Contrast and select "Auto", or manually set the brightness and contrast.
DOI: 10.6075/j0rn37mx
title: CIL: 54407, Drosophila melanogaster, Entire Organism. In Cell Image Library

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
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 ℃
DOI: 10.6075/j0s46r9c
title: CIL:43705, Homo sapiens, prostate cancer. In Cell Image Library

description: Preparation: living tissue
Relation to intact cell: dispersed cells in vitro
Item type: recorded image
Imaging mode: digital Holographic microscopy
Parameter imaged: phase shift of the laser light passing through the cell
Source of contrast: phase contrast microscopy
Visualization methods: Phase contrast holographic imaging
Processing history: Hstudio software (Phase Holographic Imaging AB)
Data qualification: ANIMATIONS
description: The human prostate cells were grown on Ibidi [Tm], 1-well µ-slides, (Ibidi GmbH, Martinsried, Germany) on a 37 °C heating plate (Ibidi).
Images were recorded for over 61 hours with one image taken every 4 minutes. The video speed is 8 images per second and the images were artificially colored (Holostudio). 
The scale bar shows image size and the color bar represent specimen thickness.

Contacts for additional details:
Phase Holographic Imaging AB (PHIAB), Scheelevägen 22, 223 63 Lund, Sweden; 
Birgit Janicke
Phone: +46 (0)46 38 60 80, 
+46 (0)07 5131681
Birgit.Janicke@phiab.se
www.phiab.se
description: A time-lapse series using digital holographic microscopy presented as a movie. The movie shows living human prostate cancer cells (DU 145) induced to undergo of apoptosis following treatment with etoposide. The images were created by Phase Holographic Imaging AB (PHIAB), Lund, Sweden.
DOI: 10.15468/dl.8buqmm
title: Occurrence Download

description: A dataset containing 14 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Nepal",
 "OccurrenceStatus is Present",
 "TaxonKey is Capricornis sumatraensis"
 ]
}

 The dataset includes 14 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009714-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6075/j0np23jd
title: CIL:24523, Rattus norvegicus, epithelial cell. In Cell Image Library

description: This image is one from a set of 40nm thick serial sections through part of a Golgi ribbon from a normal rat kidney cell, generated using transmission electron microscopy following incubation at 15°C to block transport out of the Golgi complex. Following temperature block, large bulging domains appear on the three trans-most cisternae. The images in this set were used in 3-dimensional reconstructions of the Golgi apparatus. For more information see: Ladinsky et al. (2002) Structure of the Golgi and distribution of reporter molecules at 20°C reveals the complexity of the exit compartments, Mol Biol Cell 13:2810-2825. The other images from this serial set are included in this image group.
description: Cells were grown on 100-mesh gold EM grids, and maintained at 15°C for 4 hours before plunge freezing in liquid nitrogen (BalTec HPM-010), followed by freeze-substitution (1% glutaraldehyde, 0.1% tannic acid in acetone, replaced with 4% osmium tetroxide and 0.01% uranyl acetate), then embedded in Epon-Araldite and sectioned at 40nm (UltraCut-UCT, Leica). Sections were transferred to formvar-coated copper-rhodium slot grids (EMS) and stained with 2% aqueous uranyl acetate and Reynold's lead citrate. Digital images were acquired at a magnification of 15,500X with an FEI Tecnai TF20 transmission EM. For additional details refer to: Mol Biol Cell 13:2810-2825.
description: Preparation: tissue in epoxy resin embedment; osmium tetroxide fixed tissue; glutaraldehyde fixed tissue
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
Visualization methods: uranyl salt; lead salt
Processing history: unprocessed raw data
Data qualification: Processed
DOI: 10.6075/j05719n1
title: CIL:28744. In Cell Image Library

description: One of the principal challenges in counting or segmenting nuclei is dealing with clustered nuclei. To help assess algorithms' performance in this regard, this synthetic image set consists of five subsets with increasing degree of clustering. Five subsets of 20 images each are provided. Each image contains 300 objects, but the objects overlap and cluster with overlap probability ranging from 0.0 to 0.6, and can be found with CIL 27833, 27853, 28754, 28734, and 28714, respectively. This image set has 0.45 probability overlap. The images were generated with the SIMCEP (http://www.cs.tut.fi/sgn/csb/simcep/tool.html) simulating platform for fluorescent cell population images (Lehmussola et al., IEEE T. Med. Imaging, 2007 and Lehmussola et al., P. IEEE, 2008). Ground truth for foreground/background segmentation are available as binary images as the second image in the tiff image stack. 
Recommended citation "We used the Synthetic 1 image set (Ruusuvuori et al., in Proc. of the 16th European Signal Processing Conference (EUSIPCO-2008), 2008), available from the Broad Bioimage Benchmark Collection (www.broad.mit.edu/bbbc)."
description: Preparation: first image computer simulation
Relation to intact cell: dispersed cells in vitro
Item type: portrayed image; computational methods
Imaging mode: fluorescence microscopy
Processing history: second image segmentation of simulated image
DOI: 10.6075/j01c1w0p
title: CIL:18449, damselfly, flight muscle cell. In Cell Image Library

description: Most images show fractures through the outer membrane of mitochondria and SR/T tubules of dyads nestled in long grooves of the mitochondrial surface. All leaflets of the membranes appear in the images. This image is part of the group image CFA00512. TEM magnifications is not available for this image. The negative film was scanned at LBL then reduced in size for upload. Scan step size is 6.3 micron, then reduced in size 4X for upload, for an effective pixel size of 25 micron. Technical details: Heads and tail removed, thorax bisected and immersed in 3% glutaraldehyde buffered in 0.1 M cacodylate buffer. pH 7.2. stored at 4C for several days. Muscle dissected out. Infiltrated in 30% glycerol in water. Frozen in liquid nitrogen cooled Freon, fractured in Balzers 400 Freeze-fracture, shadowed with platinum at 45o angle. Replicas were cleaned with Clorox (to remove tissue and with either sulfuric acid or NaOH to try removing the tracheolae. Replicas examined in a Philips 410 Microscope. Reference for these images: 
Takekura, H. and Franzini-Armstrong C. The structure of Ca2+ release units in arthropod body muscle indicates an indirect mechanism for excitation-contraction coupling. Biophys. J. 83, 83, 2742-2753, 2002.
description: Preparation: glutaraldehyde fixed tissue; freeze_fracture/freeze_etch
Relation to intact cell: unembedded tissue
Item type: transmission electron microscopy (TEM)
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: digitized negative film
Data qualification: Raw