cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.xeptdz
title: Occurrence Download

description: A dataset containing 198 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Torreya grandis Fortune ex Lindl.",
 "Year is greater than or equal to 1900",
 "HasCoordinate is true"
 ]
}

 The dataset includes 198 records from 15 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0124987-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.amnhtr
title: Occurrence Download

description: A dataset containing 1443022009 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "Year 1900-2020"
 ]
}

 The dataset includes 1443022009 records from 23770 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0119771-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ukqqwt
title: Occurrence Download

description: A dataset containing 62 species occurrences available in GBIF matching the query:
{
 "and" : [
 "OccurrenceStatus is Present",
 "TaxonKey is Labyrinthula zosterae"
 ]
}

 The dataset includes 62 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001492-251009101135966/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5517/cctqfsq
title: CCDC 766344: Experimental Crystal Structure Determination

description: Related Article: Natascha Hurkes, Heike M. A. Ehmann, Martina List, Stefan Spirk, Malte Bussiek, Ferdinand Belaj, Rudolf Pietschnig|2014|Chem.-Eur.J.|20|9330|doi:10.1002/chem.201402857
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: 10.15468/dl.3uarwn
title: Occurrence Download

description: A dataset containing 2692 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Human Observation",
 "Country is New Zealand",
 "TaxonKey is Apteryx australis"
 ]
}

 The dataset includes 2692 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001497-251009101135966/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.frcpv7
title: Occurrence Download

description: A dataset containing 1761 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is one of (Africa, Asia)",
 "Geometry POLYGON((27.38857 64.48317,23.55298 7.12371,117.17617 5.38028,106.71225 18.2082,108.66134 21.31196,117.87421 21.07371,122.3218 28.45988,133.83104 37.83641,152.44305 58.95002,101.79774 77.24942,27.38857 64.48317))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Chenopodium ficifolium"
 ]
}

 The dataset includes 1761 records from 63 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009372-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6075/j00v8c2j
title: CIL:350, Mus musculus, skeletal muscle cell. In Cell Image Library

description: Thin section electron microscopy of gastrocnemius (skeletal) muscle from a wild type mouse. Section was stained with warm uranyl acetate stain.

Sample was viewed with a Hitachi 7600 electron microscope (accelerating voltage 80 KV) and imaged with an AMT digital camera. Image taken at 40,000X magnification.

This image is part of a set of wild type gastrocnemius muscle images that served as controls for the study of the delta-sarcoglycan knockout mouse. Both the set of wild-type and delta-sarcoglycan knockout mouse images are part of 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
DOI: 10.6075/j0mg7nt4
title: CIL:41485, Cricetulus griseus, epithelial cell. In Cell Image Library

description: Preparation: formaldehyde fixed tissue; tissue in plastic embedment
Relation to intact cell: microtome-sectioned tissue
Item type: film
Parameter imaged: electron density
Source of contrast: differences in adsorption or binding of stain
Visualization methods: uranyl salt; osmium tetroxide
Data qualification: Raw;spatialmeasurements;intensitiesquantitation
description: CHO cells at metaphase were fixed with paraformaldehyde followed by OsO4, embedded in epoxy resin and 0.5 micrometer 'thick' sections stained with uranly acetate for HVEM observation.
See also:
H. Ris 1981 Stereoscopic electron microscopy of chromosomes. Meth Cell Biol 22:77-96
H. Ris 1978 Preparation of chromatin and chromosomes for electron microscopy. Meth Cell Biol 18:220-246.
description: High voltage (1MeV) transmission electron microscopy image of a 0.5 micrometer section through a Chinese hamster ovary cell at metaphase showing a chromatid pair, with kinetochores at the centromere. The image was taken with a specimen tilt of 42 degrees and is one of a group of 10 tilts from 77 degrees to 32 degrees at 5 degree intervals. Pairs of images provide oblique stereo views of the chromosome.
DOI: 10.6075/j0cv4gg2
title: CIL:13439, Saccharomyces cerevisiae S288c. In Cell Image Library

description: Preparation: living tissue
Relation to intact cell: whole mounted tissue
Item type: recorded image
Imaging mode: fluorescence microscopy
Parameter imaged: fluorescence emission
Source of contrast: distribution of a specific protein
Visualization methods: EGFP
Processing history: constrained iterative deconvolution
Data qualification: Processed;spatialmeasurements;intensitiesquantitation
description: Intracellular localization of GFP-Vps74 in a wild-type S. cerevisiae background grown at 26C. In wild-type cells incubated at 26C or 37C, GFP-Vps74 is localized to Golgi compartments and the cytosol. The Golgi-localized PtdIns 4-kinase in yeast is composed of the Pik1 catalytic subunit and a myristoylated calcium-binding protein, Frq1. Vps74 is essential to maintain glycosyltransferases in the Golgi and results in this study reveal a previously unrecognized PtdIns4P-binding site in Vps74/GOLPH3 family proteins and link Pik1 signaling to retention of Golgi-resident proteins. Cells grown in liquid medium were mounted in growth medium and 3D image stacks were collected at 0.4-µm z increments on a DeltaVision workstation (Applied Precision) based on an inverted microscope (IX-70; Olympus) using a 100× NA 1.4 oil immersion lens. Images were captured at 23C with a 12-bit CCD camera (CoolSnap HQ; Photometrics) and deconvolved using the iterative-constrained algorithm (Agard, 1984) and the measured point spread function. One image from the approximate center of z stack is shown in Fig1A Vps74/wild-type 26C panel in J Cell Biol. 187: 967-975. 2009. Images in Fig 1A include CIL#s 13439, 13440, 13441, 13442, 13443, 13444, 13445, 13446, 13447, 13448, 13458, 13459.
DOI: 10.6075/j0rf5tmn
title: CIL: 52770, Homo sapiens, High-grade serious overian cancer. In Cell Image Library

description: Tile x=7, y=2, z=10 from PS11_10021_2B_Myc_Terc
description: One z layer of a z-stack at the given tile position
description: Imaging mode: Fluorescence in situ hybridization (FISH)
Visualization methods: Nikon Eclipse fluorescence inverted microscope equipped with a charge-coupled device camera (Andor Neo sCMOS), using filter sets for DAPI/ YGFP/TRITC/CY GFP with an objective lens (Plan Apo VC 100x, Nikon). Captured with 100x magnification of the objective and a pixel size of 0.07 microns
DOI: 10.6075/j05d8qd7
title: CIL:47290, Staphylococcus aureus, neutrophil, endothelial cell. In Cell Image Library

description: Mice were anesthetized with ketamine/xylazine, and then subcutaneous tissue on a dorsal flap was exteriorized. GFP staphylococcus aureus beads were inserted. Antibodies were injected into the vasculature to label neutrophils (red) and endothelial cells (blue). Blocking antibodies against the molecule Mac1 were administered after 2 hours of infection.
description: Visualization of neutrophil recruitment in capillaries proximal to agarose beads.
description: Relation to intact cell: intact cells-in vivo imaging
Item type: recorded image
Imaging mode: spinning disk confocal microscopy
Source of contrast: antibody labelling
Processing history: Converted from volocity to .avi
DOI: 10.6075/j0q81cmq
title: CIL: 52632, Homo sapiens, High-grade serious overian cancer. In Cell Image Library

description: Imaging mode: Fluorescence in situ hybridization (FISH)
Visualization methods: Nikon Eclipse fluorescence inverted microscope equipped with a charge-coupled device camera (Andor Neo sCMOS), using filter sets for DAPI/ YGFP/TRITC/CY GFP with an objective lens (Plan Apo VC 100x, Nikon). Captured with 100x magnification of the objective and a pixel size of 0.07 microns
description: One z layer of a z-stack at the given tile position
description: Tile x=1, y=7, z=19 from PS09_287383C_Myc_Terc
DOI: 10.6075/j0cz36vb
title: CIL: 54247, Homo sapiens, HeLa. In Cell Image Library

description: TKL 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: 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.
DOI: 10.6075/j0v40v9z
title: CIL:39954, Mus musculus, Purkinje cell. In Cell Image Library

description: A Purkinje neuron from the cerebellum of a 2 month old male C57BL/6 mouse, injected with Lucifer Yellow. The elaborate, highly branched dendritic arbor is revealed in this maximum projection image which was generated by compiling a z-series of optical sections. This image has been downsampled from the raw data image which can be accessed using the link provided to the Cell Centered Database.
description: Tissue was perfused with paraformaldehyde, sectioned (100 µm) on a vibratome and mounted in gelvatol, and imaged on a Biorad Radiance 2000 Confocal using a 60x 1.4NA objective.
description: 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
DOI: 10.6075/j0nk3d1r
title: CIL:9058, Nephrotoma suturalis, spermatocyte. In Cell Image Library

description: Preparation: living tissue
Relation to intact cell: whole mounted tissue
Item type: recorded image; Processed image based on 5 recorded images
Imaging mode: polarization microscopy
Parameter imaged: UV/visible/IR photons
Source of contrast: intrinsic birefringence
Visualization methods: relative retardation (retardance) measurement
Processing history: 4-frame algorithm
description: The events of meiosis II in a living insect spermatocyte beginning at the completion of prophase II through the comletion of cytokinesis. Testes from the Crane fly Nephrotoma suturalis were observed with time-lapse polarization using a Nikon Microphot SA, equipped for liquid crystal polarized light microscopy (LC-PolScope, CRi, Woburn Massachusetts) 60x/1.4 PlanApo oil immersion objective, 1.4 NA oil imm. condenser, with 1.5x zoom lens. Image acquisition and processing Camera: Images captured every 30 sec over 3 hr by a Dage-MTI C300 video camera with Scion AG-5 frame grabber. Raw images were processed using a 4-frame algorithm (Shribak and Oldenbourg, 2003). Movie images represent computed retardance as gray values ranging from 0 nm retardance (black) to 2 nm retardance or higher (white).
DOI: 10.6075/j0hq3xsz
title: CIL:26589, Homo sapiens, cervical epithelium. In Cell Image Library

description: HeLa cells stably expressing BAC-encoded GFP and imaged witb a PicoQuant MicroTime 200 confocal microscope using an Olympus 60x 1.2NA water immersion objective lens. The GFP is distributed throughout the nucleoplasm. From Fig 2A in Huranova et al. 2010 J Cell Biol 191:75-86.
description: Preparation: living tissue
Relation to intact cell: whole mounted tissue
Item type: recorded image
Imaging mode: confocal microscopy
Parameter imaged: fluorescence emission
Source of contrast: distribution of a specific protein
Visualization methods: EGFP
Processing history: line averaging
Data qualification: Processed
DOI: 10.6075/j0z60msz
title: CIL:11821, Danio rerio, yolk cell. In Cell Image Library

description: Yolk syncytial layer nuclei undergo epiboly and converge dorsally during late gastrulation. Video made available by Mark Cooper through Zebrafish - The Living Laboratory.
description: Preparation: living tissue
Relation to intact cell: whole mounted tissue
Item type: recorded image
Imaging mode: fluorescence microscopy
Parameter imaged: fluorescence emission
Source of contrast: compartmentalization of stain or label
Visualization methods: visualization of contiguous regions
Processing history: unprocessed raw data
Data qualification: Raw
DOI: 10.6075/j0rr1xr8
title: CIL: 52321, Homo sapiens, High-grade serious overian cancer. In Cell Image Library

description: Imaging mode: Fluorescence in situ hybridization (FISH)
Visualization methods: Nikon Eclipse fluorescence inverted microscope equipped with a charge-coupled device camera (Andor Neo sCMOS), using filter sets for DAPI/ YGFP/TRITC/CY GFP with an objective lens (Plan Apo VC 100x, Nikon). Captured with 100x magnification of the objective and a pixel size of 0.07 microns
description: Tile x=5, y=2, z=2 from BL_024216_Myc_Terc
description: One z layer of a z-stack at the given tile position
DOI: 10.6075/j0td9wwv
title: CIL: 52545, Homo sapiens, High-grade serious overian cancer. In Cell Image Library

description: One z layer of a z-stack at the given tile position
description: Tile x=7, y=1, z=16 from BL32077_Myc_Terc
description: Imaging mode: Fluorescence in situ hybridization (FISH)
Visualization methods: Nikon Eclipse fluorescence inverted microscope equipped with a charge-coupled device camera (Andor Neo sCMOS), using filter sets for DAPI/ YGFP/TRITC/CY GFP with an objective lens (Plan Apo VC 100x, Nikon). Captured with 100x magnification of the objective and a pixel size of 0.07 microns
DOI: 10.6075/j0125rmh
title: CIL:36574, Xenopus laevis, fertilized egg. In Cell Image Library

description: Images collected on a Zeiss LSM 710 confocal with a 10X 0.3 NA objective using 561 and 633 laser lines.
description: This image is part of a large data set of Xenopus laevis eggs imaged at various times post fertilization (the first number of the file name corresponds minutes, eg 30_2 is 30 min post fertilization). The embryos are stained for alpha-tubulin (green) using a directly labeled B-5-1-2 antibody and DNA (red).
description: Preparation: methanol fixed tissue
Relation to intact cell: whole mounted tissue
Item type: recorded image
Imaging mode: single-spot confocal microscopy
Parameter imaged: fluorescence emission
Source of contrast: distribution of epitope; distribution of a specific protein
Visualization methods: labeled primary antibody
Processing history: unprocessed raw data
Data qualification: Raw;spatialmeasurements;intensitiesquantitation
DOI: 10.6075/j0z03868
title: CIL:35694, Saccharomyces cerevisiae. In Cell Image Library

description: A time lapse experiment of Saccharomyces cerevisiae expressing GFP taggedMAD2. 
 
MAD2 is a non-essential gene that encodes a component of the spindle checkpoint. The spindle checkpoint delays the onset of anaphase in cells with defects in mitotic spindle assembly or in the attachment of chromosomes to the spindle microtubules. The checkpoint works by inhibiting the activity of the anaphase promoting complex, thereby preventing the degradation of several cell cycle regulators. Like other spindle checkpoint mutants, mad2 loss-of-function mutants are sensitive to benomyl and cannot delay cell division in response to spindle depolymerization. Mad2p forms a tight complex with another spindle checkpoint protein, Mad1p, throughout the cell cycle. Mad2p also forms a complex with Cdc20p, which activates the anaphase promoting complex, and Mad3p; the presence of Mad1p is required for the complex to form. Bub1p, Bub3p, Mad1p, Mad2p, Mad3p, and the protein kinase Mps1p act in a branch of the spindle checkpoint pathway that may prevent premature chromosome disjunction. A second branch involves Bub2p and Bfa1p, and may prevent cytokinesis prior to chromosome segregation. Homologs of Mad2p act in the spindle checkpoint in Xenopus (Xmad2) and human (MAD2L1 andMAD2L2.MAD2 was originally identified as the open reading frame YJL031C. However, it is now known thatMAD2 corresponds to the adjacent open reading frame YJL030W, while YJL031C encodes the geranylgeranyltransferase subunit Bet4p.
 
These phase,gfp images are part of an image group that ranges from CIL:35680-35699. Note that there are additional groups showing time series of other cell cycle regulation proteins by the same authors in the Library.
description: Preparation: living tissue
Relation to intact cell: dispersed cells in vitro
Item type: recorded image
Imaging mode: fluorescence microscopy; phase contrast microscopy
Parameter imaged: fluorescence emission; elastic scattering of photons
Source of contrast: distribution of a specific protein; differences in amount of elastic light scattering
Visualization methods: EGFP; visualization of contiguous regions
description: Time-lapse images were collected on a DeltaVision system (Olympus IX71) with 60x/1.42 NA objective at 5 minute intervals. Please see the microscopy section in the referenced manuscript for details for image analysis.
DOI: 10.6075/j0dz07g0
title: CIL:22782, Didinium nasutum, Paramecium sp., cell by organism, eukaryotic cell, Eukaryotic Protist, Ciliated Protist. In Cell Image Library

description: Preparation: chemically fixed tissue; lyophilized specimen; Parducz fixative; Au/Pd metal sputter-coat
Relation to intact cell: whole mounted tissue
Item type: recorded image
Imaging mode: illumination by electrons; secondary_electron imaging
Parameter imaged: illumination by electrons; secondary electron generation; secondary_electron imaging
Source of contrast: detection of electrons
Visualization methods: shadowing and plating
Processing history: recorded image; film; unprocessed raw data
Data qualification: Raw
description: Didinium intiates capture of Paramecium. Believe-it-or-not, this Didinium may accomplish the ingestion of the Paramecium in less than one minute. See other images in the link below. Also showing metachronous waves of cilia in the two characteristic ciliary girdles of Didinium nasutum. This micrograph was taken in 1968 by G. Antipa on a Cambridge Mark IIA operating at 20kV. The negative magnification is 425X. Further details are available at Wessenberg, H. and Antipa, G. 1970. Capture and ingestion of Paramecium by Didinium nasutum. J. Protozool. 17:250-270.
DOI: 10.6075/j09886vq
title: CIL: 54808. In Cell Image Library

description: We examined the structural organization of cytoskeletal components and membrane systems in neurons of well preserved biopsy material from Alzheimer’s disease (AD). Information was obtained from thin sectioned material using conventional electron microscopy and from thick sections with the high voltage electron microscope.
description: This image displays degenerating neuron with the cristae junction.
description: Item type: EM tomogram
Imaging mode: Electronic tomography
DOI: 10.6075/j0z037bn
title: CIL:1661, 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 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