cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.h49zrm
title: Occurrence Download

description: A dataset containing 32857 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "Continent is Europe",
 "Year is greater than 1978",
 "Year is less than 2014",
 "HasGeospatialIssue is false",
 "TaxonKey is Primula farinosa L."
 ]
}

 The dataset includes 32857 records from 139 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0026010-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25549/inscriptifact-ouc112053093
title: Baal Myth Fifth Tablet

description: [Text Description:] Baal enters underworld, his body is discovered, El and Anat mourn him ❧ [Text or Publication Number Note:] KTU 1.5; CTA 5; CAT 1.5; KTU2 1.5; CTU 1.5; RS 2.[022]; RS 3.[565] ❧ [Excavation Description:] Excavations at Ras Shamra 1930. Found in Library of the High Priest, p. t. 210-264, Acropolis, excavated by Claude F.-A. Schaeffer, Mission Archeologique Francaise. ❧ [Medium:] Clay ❧ [Script Note:] Alphabetic Cuneiform ❧ [Physical Object Description:] Clay tablet, 14.5 cm. X 15.6 cm., 6 fragments ❧ [Physical Object Note:] Grey clay, six columns, incomplete
DOI: 10.25549/inscriptifact-ouc112054049
title: Baal Myth Sixth Tablet

description: [Text Description:] Shapsh helps Anat recover Baal's corpse, Anat destroys Mot, Baal is restored and fights Mot ❧ [Text or Publication Number Note:] KTU 1.6; CTA 6; CAT 1.6; KTU2 1.6; CTU 1.6; RS 2.[009]; RS 5.155 ❧ [Excavation Description:] Excavations at Ras Shamra 1930. Found in Library of the High Priest, p. t. 210-264, Acropolis, excavated by Claude F.-A. Schaeffer, Mission Archeologique Francaise. ❧ [Medium:] Clay ❧ [Script Note:] Alphabetic Cuneiform ❧ [Physical Object Description:] Clay tablet, 26.5 cm. X 19.5 cm., 2 fragments ❧ [Physical Object Note:] Grey clay, six columns, incomplete
DOI: 10.15468/dl.nammkr
title: Occurrence Download

description: A dataset containing 2837220 species occurrences available in GBIF matching the query:
(Query is too complex. Can be viewed on the landing page)

 The dataset includes 2837220 records from 3675 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0236067-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6075/j0p26xs3
title: CIL: 53522. In Cell Image Library

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.
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/j0ns0smv
title: CIL:17447, Paramecium multimicronucleatum, cell by organism, eukaryotic cell, Eukaryotic Protist, Ciliated Protist. In Cell Image Library

description: Cell sectioned perpendicular to the surface. The parasomal sac ends internally as a coated pit, coated with clathrin. Where the coated pit has pinched off a clathrin-coated vesicle is formed. When the clathrin is removed an endosome results. Other clathrin-coated vesicles arise from early endosomes. TEM taken on 5/21/70 by R. Allen with Hitachi HU11A operating at 75kV. Neg. 27,750X. Bar = 0.2µm. Adapted with permission from Fig. 1A published in J. Cell Sci. 101:449-461, 1992. 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:12612) 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/j0416wbj
title: CIL:906, Oryctolagus cuniculus, skeletal muscle cell. In Cell Image Library

description: Rabbit psoas skeletal muscle fibers were held at constant length and rigor induced by immersion in glycerol. The fibers were quick-frozen by contact with a liquid helium- cooled copper block in a Heuser-type cryopress, and freeze-etched in a Balzers 400 freeze fracture machine. The sample was then rotary-replicated with Pt-C at 24 degrees and visualized in a JEOL 100CX2 transmission electron microscope operated at 100 kev.

Images were recorded on Kodak 4489 film at 100,000x magnification. Stereo pairs were taken at +5 and -5 degrees. Films were scanned with a 20 micrometer pixel spacing on a Nikon Coolscan 9000ED scanner.

Stereo pair with CIL:905
description: Preparation: glutaraldehyde fixed tissue; freeze_fracture/freeze_etch
Relation to intact cell: isolated subcellular component
Item type: recorded image
Imaging mode: transmission electron microscopy (TEM); wide-field detection; widefield illumination; illumination by electrons; detection of electrons
Parameter imaged: electron density; elevation
Source of contrast: differences in deposition of metal shadow
Visualization methods: shadowing and plating
Processing history: unprocessed raw data
DOI: 10.6075/j0jq10bh
title: CIL:40376, Sus scrofa domestica, kidney epithelial cell. In Cell Image Library

description: Time lapse movie of a porcine kidney LLCPK1 cell stably expressing photoactivable GFP-tubulin. Fluorescence was activated at metaphase in a vertical strip between the metaphase plate and spindle pole. The activated strip moves poleward, demonstrating a marked microtubule flux during mitotic metaphase. The time series of images used to prepare the movie is included in this group of images.
description: Cells were imaged using a Nikon Eclipse TE300 microscope with 100x phase NA 1.4 objective lens and spinning disk confocal head (Perkin Elmer) and images captured with a Hamamatsu Orca ER cooled CCD camera every 2 sec. Photoactivation was achieved with a 5-sec exposure to 413-nm light from an X-Cite 120 lamp.
See also: NP Ferenz and P Wadsworth 2007. Prophase microtubule arrays undergo flux-like behavior in mammalian cells. Mol Biol Cell 18:3993-4002
description: Preparation: living tissue
Relation to intact cell: whole mounted tissue
Item type: charge coupled device (CCD)
Imaging mode: spinning disk confocal microscopy
Parameter imaged: fluorescence emission
Source of contrast: distribution of a specific protein
Visualization methods: EGFP
Data qualification: Processed
DOI: 10.6075/j0rf5tn3
title: CIL: 53152, Homo sapiens, High-grade serious overian cancer. In Cell Image Library

description: Image 4, z=14 from SC_030
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 image
DOI: 10.6075/j0cr5sj1
title: CIL:17452, Didinium nasutum, cell by organism, eukaryotic cell, Eukaryotic Protist, Ciliated Protist. In Cell Image Library

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; unprocessed raw data
Data qualification: Raw;spatialmeasurements
description: A transverse section near the tip of the oral proboscis of Didinium. This micrograph shows the extrusive organelles of the mucocysts adjacent to the plasma membrane, the toxicysts in a circular ring adjacent to the mucocysts, and the denser pexicysts in the central region of the proboscis. A section deeper in the proboscis is found at (CIL:17451). Further details available at Wessenberg, H. and Antipa, G. 1968. Studies on Didinium nasutum. I. Structure and ultrastructure. Protistologica 4:427-447. And details of the operation of this structure is available at Wessenberg, H. and Antipa, G. 1970. Capture and ingestion of Paramecium by Didinium nasutum. J. Protozool. 17:250-270. TEM taken in 1966 by G. Antipa with JEM T6S operating at 50kV. Neg. 6,000X. The raw film was scanned with an Epson Perfection V750 Pro. This image is 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 50nm thickness.
DOI: 10.6075/j0qz2977
title: CIL:1745, 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/j0rx9c4b
title: CIL:36159, Rattus, multipolar neuron. In Cell Image Library

description: Embryonic rat hippocampal neurons were prepared as previously described (see Kaech and Banker, 2006, Nat Protoc). Cells were prepared for fluorescent staining as previously described (Withers and Banker, 1998, in Culturing Nerve Cells, MIT Press). Briefly, cells were fixed (4% formaldehyde, 4% sucrose in phosphate buffered saline, pH 7.4), permeabilized with 0.25% Triton and immunostained for MAP2 (monoclonal HM2, Sigma, with Alexa 488 conjugated secondary, excitation, 494, emission, 519 [Invitrogen, Molecular Probes]) and synapsin I (from P. DeCamilli, with DyLight549 conjugated secondary, excitation, 555, emission, 568, [Jackson Immunoresearch]). Images were acquired with a Leica DMRA microscope with a 20X objective (Fluotar, 0.5NA), Photometrics CoolSnap ES CCD camera and MetaMorph software. This color was generated using the MetaMorph "color combine" function.
description: Synapse development in cultured hippocampal neurons after 15 days in vitro. Neurons were immunostained for MAP2, a microtubule associated protein localized to dendrites (green) and the presynaptic vesicle protein Synapsin I (red) to show the density of presynaptic contacts along the dendritic arbor.
description: Preparation: formaldehyde fixed tissue; detergent permeabilized
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 epitope
Visualization methods: primary antibody plus labeled secondary antibody
Processing history: unprocessed raw data
Data qualification: Raw;spatialmeasurements
DOI: 10.6075/j0w095bg
title: CIL: 50915, Caenorhabditis elegans (roundworm, nematode), Intestine cells and Oocytes. In Cell Image Library

description: Worms were cultured onto normal growing medium plates spread with Escherichia coli (OP50 strain) and high pressure frozen in a Wohlwend Compact 3 machine, followed by a short freeze substitution protocol in 2% Uranyl acetate and embedded in HM20 resin. Sections of 70 nm thickness were then contrast stained with 2% Uranyl acetate and Reynold's lead citrate. Pictures were aquired in a Tecnai T12 TEM with a Ceta CMOS 16M camera.
description: Imaging mode: transmission electron microscopy (TEM)
Visualization methods: Stain with Uranyl acetate and Lead citrate
description: Wild type Caenorhabditis elegans (N2 background) were high pressure frozen and visualized through transmission electron microscopy (TEM). The images show the nucleus of intestine cells and Oocytes and the black arrow indicates nuclear envelope budding events.
DOI: 10.6075/j02f7mhc
title: CIL:12978, Paramecium multimicronucleatum, eukaryotic cell, Eukaryotic Protist, Ciliated Protist. In Cell Image Library

description: Four parasomal sacs showing them in longitudinal section each at the base of a surface depression. Trichocysts extend into each lateral ridge (lateral ridges do not have kinetodesmal fibers). Bulbous ends of parasomal sacs are covered with clathrin cages. TEM taken on 4/7/80 by R. Allen with Hitachi HU11A operating at 75kV. Neg. 12,250X. Bar = 0.5µm. 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:12611) 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: film; Print from negative scanned for Photoshop.
Data qualification: Processed
DOI: 10.6075/j0jm28b5
title: CIL:17445, Paramecium multimicronucleatum, cell by organism, eukaryotic cell, Eukaryotic Protist, Ciliated Protist. In Cell Image Library

description: We raised a monoclonal antibody in mouse to an antigen called C6 found on the surface of Paramecium. As seen in this micrograph the gold heavily labels the ciliary membrane and cell surface. In addition the gold is found in the parasomal sacs, in preendosomal vesicles and in early endosomes. However, there is almost no gold in the small coated evaginations of the early endosome or in the carrier vesicles escaping from the early endosomes. We conclude that this antigen passes no further into the cell and is recycled back to the plasma membrane. This antigen could be a cargo receptor that is cycled between the plasma membrane and the early endosome. The cargo may fall off this receptor in the early endosome and be concentrated in the small coated evaginations as is HRP for transport deeper into the cell. TEM taken on 5/14/91 by R. Allen with Zeiss 10A operating at 80kV. Neg. 12,000X. Bar = 0.5µm. Published in J. Cell Sci. 101:449-461, 1992. Adapted with permission from J. Cell Sci. 101:449-461, 1992. Cells were lightly fixed with 0.25% glutaraldehyde and infiltrated with 2.3M sucrose before being frozen in liquid nitrogen and thin sectioned at a temperature of –100°C at approximately 75nm thickness. Frozen sections from these preparations were then thawed, washed, and exposed to a monoclonal primary antibody that was raised in mice or rabbit/goat and to colloidal gold-complexed goat-anti-mouse/rabbit secondary antibodies. Further details of preparation are outlined in Methods Cell Biol. 2010;96:143-73. 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:12641) is in the library and available for quantitative analysis. Additional information available at (http://www5.pbrc.hawaii.edu/allen/).
description: Preparation: glutaraldehyde fixed tissue; tissue in vitreous ice embedment; microtome-sectioned tissue; monoclonal antibody
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: intrinsic mass distribution; stain with broad specificity
Visualization methods: stain with broad specificity; uranyl salt; gold
Processing history: recorded image; film; Print from negative scanned for Photoshop.
Data qualification: Processed
DOI: 10.6075/j0m0453z
title: CIL: 53781, Homo sapiens, HeLa. In Cell Image Library

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.
description: Visualization methods: confocal microscopy
DOI: 10.6075/j0d7994h
title: CIL:17441, Paramecium multimicronucleatum, cell by organism, eukaryotic cell, Eukaryotic Protist, Ciliated Protist. In Cell Image Library

description: Paramecium multimicronucleatum is covered with cilia which cilia arise from regular surface depressions roughly rectangular in shape. This image is adapted with permission from Fig. 1 in J. Cell Biol. 49:1-20, 1971. The plasma membrane covers the exterior of the cell and this is closely attached to a mosaic of alveolar sacs internally which in this micrograph are expanded. Borders of adjacent alveolar sacs form septa along each row of cilia and sometimes laterally as well. Septa do not follow the crests of the ridges. The ridges of the rectangular depressions at their tips are filled internally with a granulo-fibrillar material. Trichocyst tips penetrate into the transverse margins along each row of cilia. In this micrograph the trichocysts have been expelled and in a few cases only their membranous casings remain. Collidine buffered fixative. TEM taken on 12/20/68 by R. Allen with Philips 300 operating at 60kV. Neg. 16,000X. Bar = 0.5µm. 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:12029) 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/j0j38rsw
title: CIL:1749, 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.