cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6075/j0d50kwk
title: CIL:35283, Mus musculus, fibroblast. In Cell Image Library

description: Prepared slide purchased from Molecular Probes imaged with a 60X N.A. 1.4 phase 3 lens on an Olympus IX 70 microscope with a 100W Hg arc lamp for illumination, narrow pass filter blocks for widefield fluorescence microscopy, and a 1.5X relay lens in front of a Cooke Sensicam HQ air cooled CCD camera. Imaged at the Analytical Imaging Facility of the Albert Einstein College of Medicine.
description: Preparation: chemically fixed tissue
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 a specific protein
Visualization methods: Fluorescein (FITC); phalloidin
Data qualification: Processed;spatialmeasurements
description: The f-actin staining in the lamella of a cultured fibroblast shows common features of adherent cells on a flat substrate. The dominant f-actin organization is in the form of stress fibers, linear bundles of actin filaments ending at cell adhesions to the substrate. In the upper left, actin can be seen modeling the highly dynamic leading edge. There are three patches of ruffles behind the leading edge.
DOI: 10.6075/j0542nqd
title: CIL:39974, Mus musculus, CNS neuron (sensu Vertebrata). In Cell Image Library

description: Single transmitted light section from a through focus series through a photoconverted medium spiny cell from the neostriatum of a wild type mouse. Flocculent material surrounding the labeled cell is likely photoconverted mitochondria or non-specific debris produced by the photoconversion procedure.
description: Tissue was prepared from a 7 month adult male mouse strain, C57BL/129SvJ. Tissue sections, 100µm, were generated using a vibratome. The entire through series of images were gathered using a Bio-Rad Radiance 2000 with a Nikon Plan Apo 60X 1.4 NA.
description: Relation to intact cell: vibratome-sectioned tissue
Item type: recorded image
Imaging mode: confocal microscopy
Visualization methods: intracellular filling
Data qualification: Processed
DOI: 10.25934/pr00011686.0
title: Available datapackage for study 'Randomized, Double-Blind, Placebo-Controlled, Parallel-Group Study to Assess Cardiovascular Outcomes Following Treatment With Ertugliflozin (MK-8835/PF-04971729) in Subjects With Type 2 Diabetes Mellitus and Established Vascular Disease, The VERTIS CV Study'

description: An overall study of the cardiovascular outcomes following treatment with ertugliflozin in participants with type 2 diabetes mellitus (T2DM) and established vascular disease. The main objective of this study is to assess the cardiovascular safety of ertugliflozin. This trial includes 3 pre-defined glycemic sub-studies; 1. In participants receiving background insulin with or without metformin, 2. In participants receiving background sulfonylurea monotherapy, and 3. In participants receiving background metformin with sulfonylurea (all fully-enrolled).Participants enrolled prior to Amendment 1 were in the overall study as well as a sub-study, if they met certain entry criteria. Participants enrolled following the start of Amendment 1 were only enrolled in the overall study. The sub-studies were the initial 18 weeks of the overall study period.
DOI: 10.25909/27246759.v1
title: Supporting data for "Software library to quantify the value of forecasts for decision-making: Case study on sensitivity to damages" by Laugesen et al. (2024)

description: Results data and figures for the journal paper.Dataset includes compressed Python Pickle files containing Dictionaries of NumPy arrays and metadata for each figure. This contains input and output data. Also includes image files for each figure are also included in PNG, SVG, and PDF.<br>Journal paper introduces RUVPY, a Python software library which implements the Relative Utility Value (RUV) method. This is available at https://github.com/richardlaugesen/ruvpy and can now be used by researchers and industry to quantify the value of forecast for decision making (pip install ruvpy).References<i>Laugesen, Richard and Thyer, Mark and McInerney, David and Kavetski, Dmitri, Software Library to Quantify the Value of Forecasts for Decision-Making: Case Study on Sensitivity to Damages. </i><i>http://dx.doi.org/10.2139/ssrn.5001881</i><i> (under review)</i><i>Laugesen, R., Thyer, M., McInerney, D., & Kavetski, D. (2023). Flexible forecast value metric suitable for a wide range of decisions: application using probabilistic subseasonal streamflow forecasts. Hydrology and Earth System Sciences, 27(4), 873-893. </i><i>https://doi.org/10.5194/hess-27-873-2023</i>Laugesen, R., Thyer, M., McInerney, D., & Kavetski, D. (2024). RUVPY software library to quantify the value of forecasts for decision-making using RUV (v0.9.0). Zenodo. https://doi.org/10.5281/zenodo.13939199
DOI: 10.15468/dl.n6xgtx
title: Occurrence Download

description: A dataset containing 4978 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Barringtonia asiatica"
 ]
}

 The dataset includes 4978 records from 135 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009218-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6075/j0w095dc
title: CIL: 51790, Mus musculus, RAW 264.7 TIB-71. In Cell Image Library

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.
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/j0639ncj
title: CIL:37153, Cavia porcellus, pancreatic. In Cell Image Library

description: Transmission electron micrograph of guinea pig pancreas membrane fractionations. Field is from the bottom quarter of the pellet . At this level the preparation consists primarily of large single sheets of cell membranes often associated with parallel sheets of basement membrane which indicate that they are coming from the basal region of the exocrine cells. Image corresponds to Figure 11a from J. Cell. Biol. 49:109-129, 1971. Image made available by James D. Jamieson and the Department of Cell Biology, Yale University School of Medicine.
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
Visualization methods: uranyl salt; lead salt
description: Original 3.25 in. x 4 in. lantern slides were scanned at 600dpi.
DOI: 10.6075/j0416x48
title: CIL:36331, Rattus, astrocyte. In Cell Image Library

description: Preparation: formaldehyde fixed tissue
Relation to intact cell: vibratome-sectioned tissue
Item type: recorded image
Imaging mode: confocal microscopy
Parameter imaged: fluorescence emission
Source of contrast: intracellular filling
Visualization methods: lucifer yellow
Data qualification: Processed
description: Intracellular dye injections of protoplasmic astrocytes from the CA1 region of hippocampus of 3 week old rat reveals highly ramified spongiform processes that span territories with minimal overlap. Astrocytes were filled with Lucifer Yellow. Optical sections were generated with a single photon confocal microscope, and compiled to produce this maximum intensity projection image.
description: Male Sprague Dawley rats, 3 weeks of age, were anaesthetized and perfused transcardially with with Ringer's solution (37°C), followed by 4% paraformaldehyde (PFA) in PBS (37°C, pH 7.4). Tissue was sectioned (100 µm thick) using a vibratome, and injected with a BX50WI microscope (Olympus, Melville, NY) and, using infrared differential interference contrast videomicroscopy,cells with a small diameter soma (approx. 7–11µm) in the stratum
radiatum of CA1 were located and impaled with glass micropipettes filled with 5% aq. Lucifer Yellow. The astrocytes were filled using a 0.5 Hz pulses of current until all of the processes were brightly fluorescent. After several astrocytes were filled, a slice was placed in the 4% PFA overnight at 4°C. Slices were then imaged after coverslipping in Gelvatol. Confocal images were acquired with a BioRad Radiance2000 (Hercules, CA) attached to a Nikon E600FN (Kanagawa, Japan) microscope equipped with a Nikon (Tokyo, Japan) 60x oil objective (NA 1.4). Additional details are provided in Bushong EA, Martone ME, Ellisman MH. Maturation of astrocyte morphology and the establishment of astrocyte domains during postnatal hippocampal development. Int J Dev Neurosci. 2004 Apr;22(2):73-86.
DOI: 10.6075/j0fx78q5
title: CIL:1662, Caenorhabditis elegans. In Cell Image Library

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 0 data set. Note that the morphological and chronological ages are not fully correlated due to the variability among individuals even though the individuals are genetically identical. The source for the dataset is Laboratory of Genetics/NIA/NIH.
description: Relation to intact cell: whole mounted tissue
Item type: recorded image
Imaging mode: 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: 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.
DOI: 10.6075/j0833r8s
title: CIL:2053, Caenorhabditis elegans. In Cell Image Library

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.
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
DOI: 10.6075/j0z036wd
title: CIL:150, Potorous tridactylus, epithelial cell. In Cell Image Library

description: Preparation: living tissue
Relation to intact cell: dispersed cells in vitro
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: Differential interference microscopy (DIC) image of PtK1 cell (marsupial kidney epithelial cell expressing dominant-negative Rac1(T17N). Live cells were used to study microtubule dynamics using X-rhodamine tubulin (injected at 1 mg/mL)and EGFP-Rac1(T17N) (expression vector injected into the cell nucleus at 100 ug/mL). Image corresponds to Fig 3 and microtubule dynamics correspond to Video 3 in J Cell Biol, 161:845-851, 2003. Video 3 is contained within the same image group as this figure.
DOI: 10.6075/j0r49q16
title: CIL:1769, Caenorhabditis elegans. In Cell Image Library

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.
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: 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
DOI: 10.6075/j0xw4j38
title: CIL:1793, Caenorhabditis elegans. In Cell Image Library

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: 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: 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.
DOI: 10.6075/j06h4g7x
title: CIL:39474, Tanacetum parthenium, parenchymal cell, epidermal cell. In Cell Image Library

description: Colorized scanning electron micrograph of a Feverfew (Tanacetum parthenium) stoma. Measuring 20 microns, a stoma (plural stomata) is a pore, found in the leaf and stem epidermis that is used for gas exchange. The pore is bordered by a pair of specialized parenchyma cells known as guard cells that are responsible for regulating the size of the opening. Carbon dioxide and oxygen enters the plant through these pores and used in photosynthesis and respiration. Oxygen produced by photosynthesis exits through these same openings. Water vapor is also released into the atmosphere through these pores in a process called transpiration.
description: B0008354 Feverfew stoma. Wellcome Images available under the following creative commons usage http://creativecommons.org/licenses/by-nc-nd/2.0/uk/
description: 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
Processing history: colorized
DOI: 10.6075/j0w958zc
title: CIL: 54192. In Cell Image Library

description: Visualization methods: confocal microscopy
description: Kinome Atlas documented representative images for 456 kinases expressed in HeLa cells, and visualized by immunofluorescence staining of the epitope tag. Nuclei were stained with DAPI. Two representative views from confocal microscopy were collected for each kinase. Also, organelle markers were co-stained for some kinases to indicate specific localization.
description: TK family: The human kinome comprises 538 kinases playing essential cellular functions by catalyzing protein phosphorylations. Systematic annotation of subcellular spatial distribution of the kinome greatly facilitates investigation of normal and disease mechanisms. Here, we present Kinome Atlas (KA), an image-based map of the kinome annotated to 10 compartments of the cell. 456 epitope-tagged kinases, representing 85% of the human kinome, were expressed in HeLa cells and imaged by immunofluorescent microscopy under a unified condition. KA revealed kinase family-enriched subcellular localizations, and discovered a collection of new kinase localizations at mitochondria, plasma membrane, extracellular space, and other unique structures. This resource provides the first snapshot of the kinome under a unified condition, and is a key step toward comprehensive understanding of the spatial and temporal dynamics of the kinome in physiological and disease states.
DOI: 10.6075/j02r3qcd
title: CIL:20814, Paramecium multimicronucleatum, cell by organism, eukaryotic cell, Eukaryotic Protist, Ciliated Protist. In Cell Image Library

description: Cubic membrane such as this array represents the cell's method of storing large quantities of lipid and protein bilayers into the smallest possible volume. These membranes can quickly expand into planar sheets when the ampulla or the collecting canal needs to expand. These arrays actually bury the microtubular ribbons between the membrane of the collecting canal and these three-dimensional arrays. TEM taken on 8/8/96 by R. Allen with Zeiss 10A operating at 80kV. Neg. 31,500X. Bar = 0.2µm. Adapted with permission from the J. Cell Sci. 112:3733-3745, 1999. 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:20814) 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/).
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
DOI: 10.6075/j0b27tzc
title: CIL: 54057. In Cell Image Library

description: TK family: The human kinome comprises 538 kinases playing essential cellular functions by catalyzing protein phosphorylations. Systematic annotation of subcellular spatial distribution of the kinome greatly facilitates investigation of normal and disease mechanisms. Here, we present Kinome Atlas (KA), an image-based map of the kinome annotated to 10 compartments of the cell. 456 epitope-tagged kinases, representing 85% of the human kinome, were expressed in HeLa cells and imaged by immunofluorescent microscopy under a unified condition. KA revealed kinase family-enriched subcellular localizations, and discovered a collection of new kinase localizations at mitochondria, plasma membrane, extracellular space, and other unique structures. This resource provides the first snapshot of the kinome under a unified condition, and is a key step toward comprehensive understanding of the spatial and temporal dynamics of the kinome in physiological and disease states.
description: 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.
description: Visualization methods: confocal microscopy
DOI: 10.6075/j05h7f5f
title: CIL:41558, Hydriomena. In Cell Image Library

description: Relation to intact cell: whole mounted tissue
Item type: recorded image
Imaging mode: bright-field microscopy; epi-illumination
Parameter imaged: absorption of illumination
Source of contrast: differences in intrinsic optical density
Processing history: assembly of image stack
description: Hydroid collected from kelp sample captured using epi-illumination and an image stack. Honorable Mention, 2011 Olympus BioScapes Digital Imaging Competition©.