cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6075/j0z89bvn
title: CIL: 51713, 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: ~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: 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.
DOI: 10.6075/j0wm1d2z
title: CIL: 53528. In Cell Image Library

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
description: AGC 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/j0kw5dph
title: CIL:38676, Spirocodon saltatrix, oocyte. In Cell Image Library

description: Preparation: living tissue
Relation to intact cell: whole mounted tissue
Item type: recorded image
Imaging mode: polarization microscopy
Parameter imaged: retardance
Source of contrast: form birefringence
Visualization methods: visualization of contiguous regions
Processing history: montage
Data qualification: Processed
description: Dividing egg of the jellyfish (Spirocodon saltatrix showing birefringent spindles. The arrow indicates the direction of the compensator slow axis. AS the cell is rotated 90 degrees with respect to the axis, the contrast of the spindles change from dark to light.
description: See: S. Inoue and K. Dan (1951) Birefringence of the dividing cell. J Morph 89:423-455.
DOI: 10.6075/j0zg6r1s
title: CIL:40318, Homo sapiens, epithelial cell, cervical carcinoma. In Cell Image Library

description: Transmission electron micrograph of a thin section of the nucleus of a HeLa cell expressing a mutant of the nuclear porin ALADIN. The nuclear envelope ultrastructure is not affected by the mutation. Other images in this group show details of nuclear pore structure in cross section and tangential section.
description: Normal HeLa cells expressing were fixed with glutaraldehyde, embedded in epoxy resin, thin sectioned, and imaged using a Philips CM10 TEM.
See: J Cronshaw and M Matunis 2003 The nuclear pore complex ALADIN is mislocalized in triple A syndrome Proc Natl Acad Sci USA 100 5823-5827
description: Preparation: glutaraldehyde fixed tissue; tissue in plastic embedment
Relation to intact cell: microtome-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; uranyl salt; lead salt
Data qualification: Processed
DOI: 10.6075/j0gh9gx8
title: CIL:36746, 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: Conventional freeze-fractured images of DV-III membrane also suggests a transformation from a membrane with a smooth E-fracture face to one with characteristic large IMPs on its E-fracture face. The DV-III membrane resembles the lysosomal membrane which also has a moderate number of large IMPs on its E-fracture face. (For freeze-fracture study of DVs see Allen and Staehelin, J. Cell Biol. 89:9-20, 1981). TEM taken on 2/16/76 by R. Allen with JEM-100B operating at 80kV. Neg. 31,193X. Bar = 0.2µm. A print of the negative was scanned and processed in Photoshop. This image is best used for qualitative analysis. Additional information available at (http://www5.pbrc.hawaii.edu/allen/).
DOI: 10.6075/j0k35tdz
title: CIL: 54362, Homo sapiens, HeLa. In Cell Image Library

description: Visualization methods: confocal microscopy
description: Atypical 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.
DOI: 10.6075/j0k936z0
title: CIL: 50989, 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: populations of ~1200 cells plated on glass in standard media were imaged at 37º C in each experiment. A target subpopulation of ~100 cells display a readily observed extended, ruffling leading edge pseudopod . The cells exhibiting these deployed, extended pseudopods were counted in each unit area at 6 timepoints during the 3 hr observation period following rapid addition of drug to its standard working concentration. Altogether, 6 experiments were carried out for each treatment, yielding average timecourses summarizing observations of ~600 polarized cells.

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: 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 a full therapeutic dose at once at t=0.
DOI: 10.6075/j0gm86b0
title: CIL:7117, Homo sapiens, neuron. In Cell Image Library

description: The protein MeCP2 binds to symmetrically methylated CpG dinucleotides and is thought to transmit the (generally) repressive signals encoded in DNA methylation patterns. Mutations in MeCP2 lead to Rett syndrome. Here, MeCP2-DNA complexes have been imaged by AFM (Digital Instruments Nanoscope) in air using human MeCP2 and an 828 bp DNA sequence containing several methylated CpGs. MeCP2 molecules appear as bright particles in AFM images. Volume measurements of the complexes suggest that MeCP2 monomers (circular particles) and dimers (larger elliptical particles) are present and suggest that MeCP2 binds DNA cooperatively. Other images in the grouped set show looped structures and large complexes containing multiple DNA strands and MeCP2 molecules. These configurations are likely promoted by the multiple independent DNA-binding domains of MeCP2 and relevant to the in vivo interactions between MeCP2 and chromatin.
description: Preparation: glutaraldehyde fixed tissue
Relation to intact cell: isolated subcellular component
Item type: recorded image
Imaging mode: microscopy; atomic force microscopy
Parameter imaged: specimen height
Source of contrast: specimen height
Processing history: unprocessed raw data
DOI: 10.6075/j0n87965
title: CIL: 50726, FIB-SEM Dataset of anti-PKHD1L1 Immuno-Gold Labeled Outer Hair Cell Stereocilia Bundles. 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. 
7.2_Test_Cell_GoldParticle_Segmentation is a multipage TIFF file illustrating the manually placed gold beads in a pattern as described in the Technical Validation section. Same as ‘GoldParticles.am’ file used for MATLAB volume analysis of this cell, but converted to TIFF to allow for online preview.
This file is a part of Dataset 7, comprised of files used as a technical validation dataset. It is an artificial dataset with manually placed gold beads, used to access the accuracy of the MATLAB script. The choice of gold bead placement location was unique for each row of stereocilia to control for potential errors of stereocilia placement within the rows during MATLAB analysis. No beads were placed on the surface of the kinocilium.
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: 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.
DOI: 10.6075/j0wq02pj
title: CIL:41049, Chlamydomonas reinhardtii. 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; lead salt
Data qualification: Processed
description: Electron micrograph of a thin section through a portion of the chloroplast of the unicellular green alga Chlamydomonas. Free ribosomes are seen as dark particles within the chloroplast stroma. They are considerably smaller than the cytoplasmic ribosomes seen at upper right. Ribosomes from chloroplasts, mitochondria, and prokaryotes sediment at 70S, compared to 80S for cytoplasmic ribosomes.
description: Image recorded on 08/23/1974. Original 3.25 in. x 4 in. lantern slides were scanned at 600dpi.
DOI: 10.6075/j0c8295b
title: CIL:37074, Xenopus laevis, CNS neuron (sensu Vertebrata). In Cell Image Library

description: Specifications of the custom built two-photon microscope, including the laser sources, signal amplification, PMT specifications, and YFP filter sets are described in: 
Ruthazer ES, Li J, Cline HT. 2006. Stabilization of axon branch dynamics by synaptic maturation. J Neurosci 26(13):3594-3603. 

The methods of cell transfection with electroporation can be found here: 
Bestman JE, Ewald RC, Chiu S-L, Cline HT. 2006. In vivo single-cell electroporation for transfer of DNA and macromolecules. Nat Protocols 1(3):1267-1272. 

Further explanation can be found here:
Bestman JE, Cline HT. 2008. The RNA binding protein CPEB regulates dendrite morphogenesis and neuronal circuit assembly in vivo. Proc Natl Acad Sci U S A 105(51):20494-20499.

Bestman JE, Cline HT. 2009. The Relationship between Dendritic Branch Dynamics and CPEB-Labeled RNP Granules Captured in Vivo. Front Neural Circuits 3:10.
description: This is IMAGE #7 (hour 8) of a developing neuron from the optic tectum of an albino Xenopus laevis tadpole CNS, stage 47. 
 The cell was imaged at a 2 hour interval over 8 hours and shows the development and morphological plasticity of the dendritic arbor and axon over time. This is the second image of this neuron at this timepoint
 
 The cell was transfected with in vivo electroporation of plasmid DNA encoding eGFP ~24 hours before the image was acquired. The intact, living tadpole was anesthetized, positioned under a glass coverslip and this image was taken directly through its transparent skin using a custom built two-photon microscope.
description: Preparation: living tissue
Relation to intact cell: whole mounted tissue
Item type: recorded image
Imaging mode: multi-photon microscopy
Parameter imaged: fluorescence emission
Source of contrast: distribution of a specific protein
Visualization methods: EGFP
Processing history: unprocessed raw data
Data qualification: Raw;spatialmeasurements;intensitiesquantitation
DOI: 10.6075/j0416vxr
title: CIL:39730. In Cell Image Library

description: Preparation: glutaraldehyde fixed tissue
Relation to intact cell: isolated subcellular component
Item type: CCD
Imaging mode: transmission electron microscopy (TEM)
Parameter imaged: electron density
Source of contrast: differences in deposition of metal shadow
Visualization methods: shadowing and plating
Data qualification: Processed
description: Reconstitutes were fixed in the appropriate salt environment, applied to thin carbon films, air dried, and shadowed with Pt using electron bean evaporation (Balzers BA 080 vacuum evaporator. Grids were examined in a FEI Tecnai 12 TEM at 100KV with a LaB6 filament and tilted darkfield optics, and recorded using a TVIPS 2k CCD camera.
See also: S A Grigoryev et al. 2009 Evidence for heteromorphic chromatin fibers from analysis of nucleosome interactions. Proc Natl Acad Sci USA 106:13317-13322.
description: TEM images of reconstituted chromatin prepared from 12-mer tandem repeats of a strong nuclear positioning sequence and purified histones. Samples were compacted in the appropriate salt, and mildly crosslinked with formaldehyde to preserve nucleosome-nucleosome interactions, then allowed to decondense in low salt prior to fixation with glutaraldehyde, and shadowing with Pt. (B-D with linker histone and without Mg; J-M) with linker histone and 1 mM MgCl2; (N-S)with linker histone and 4mM MgCl2. The drawings at right show the authors' interpretation of the adjacent micrograph showing crosslinked nucleosomes and the number of nucleosomes included in the 'loop' created by the crosslink.
 See Fig 3 in S A Grigoryev et al. 2009 Evidence for heteromorphic chromatin fibers from analysis of nucleosome interactions. Proc Natl Acad Sci USA 106:13317-13322 
 See Fig 1 in: S A Grigoryev et al. 2009 Evidence for heteromorphic chromatin fibers from analysis of nucleosome interactions. Proc Natl Acad Sci USA 106:13317-13322
DOI: 10.6075/j02b8wp8
title: CIL:27843. In Cell Image Library

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
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 0.0 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)."
DOI: 10.6075/j0k073z5
title: CIL: 53789. In Cell Image Library

description: Visualization methods: confocal microscopy
description: CMGC 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.
DOI: 10.5281/zenodo.17490195
title: Global Yellow Phosphorus & Derivatives Market 2025 To 2034

description: Yellow Phosphorus & Derivatives Market Size, Trends and Insights By Application (Fertilizers, Pesticides, Flame Retardants, Animal Feed Additives), By Derivative (Thermal Phosphoric Acid, Phosphorus Trichloride, Phosphorus Pentoxide, Phosphorus Sulfides, Red Phosphorus), By Form (Solid, Liquid, Slurry), By End-use (Agriculture, Chemicals, Food & Beverages, Pharmaceuticals, Lithium-ion Batteries), and By Region - Global Industry Overview, Statistical Data, Competitive Analysis, Share, Outlook, and Forecast 2025 – 2034.

Reports Description

As per the Yellow Phosphorus & Derivatives Market analysis conducted by the CMI team, the healthcare personal protective equipment (PPE) market is expected to record a CAGR of 5.34% from 2025 to 2034. In 2025, the market size was USD 5.66 Billion. By 2034, the valuation is anticipated to reach USD 9.02 Billion.For more information, DOWNLOAD FREE SAMPLE Now at https://www.custommarketinsights.com/request-for-free-sample/?reportid=75166
DOI: 10.5281/zenodo.17490196
title: Global Yellow Phosphorus & Derivatives Market 2025 To 2034

description: Yellow Phosphorus & Derivatives Market Size, Trends and Insights By Application (Fertilizers, Pesticides, Flame Retardants, Animal Feed Additives), By Derivative (Thermal Phosphoric Acid, Phosphorus Trichloride, Phosphorus Pentoxide, Phosphorus Sulfides, Red Phosphorus), By Form (Solid, Liquid, Slurry), By End-use (Agriculture, Chemicals, Food & Beverages, Pharmaceuticals, Lithium-ion Batteries), and By Region - Global Industry Overview, Statistical Data, Competitive Analysis, Share, Outlook, and Forecast 2025 – 2034.

Reports Description

As per the Yellow Phosphorus & Derivatives Market analysis conducted by the CMI team, the healthcare personal protective equipment (PPE) market is expected to record a CAGR of 5.34% from 2025 to 2034. In 2025, the market size was USD 5.66 Billion. By 2034, the valuation is anticipated to reach USD 9.02 Billion.For more information, DOWNLOAD FREE SAMPLE Now at https://www.custommarketinsights.com/request-for-free-sample/?reportid=75166
DOI: 10.15468/dl.pxn4uy
title: Occurrence Download

description: A dataset containing 5 species occurrences available in GBIF matching the query:
{
 "and" : [
 "GadmGid is CHN.28_1",
 "TaxonKey is Echinops przewalskii"
 ]
}

 The dataset includes 5 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009321-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.