cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6075/j0639pkn
title: CIL:36944, Xenopus laevis, CNS neuron (sensu Vertebrata). In Cell Image Library

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: EYFP
Processing history: unprocessed raw data
Data qualification: Raw;spatialmeasurements;intensitiesquantitation
description: This is IMAGE #5 (40 minutes) of a time lapse series contained with in this image group. It shows the dendritic arbor from a pair of neurons in the optic tectum of an albino Xenopus laevis tadpole CNS, stage 47.
 
 The images were acquired with 10 minute intervals and show morphological plasticity of the dendritic arbor with branch additions and retractions.
 
 These cells were transfected with in vivo electroporation of plasmid DNA encoding eYFP ~24 hours before the first 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.
 
 Images were acquired every 10 minutes for 1 hour. After 60 minutes, the animal was placed in a 50 microMolar anisomycin solution for ~1.5 hours. A second time lapse series (10 minute interval for 60 minutes) was then acquired.
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.
DOI: 10.6075/j03j3ctb
title: CIL:36880, 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: 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: EYFP
Processing history: unprocessed raw data
Data qualification: Raw;spatialmeasurements;intensitiesquantitation
description: This is IMAGE #1 (day 1) of a time lapse series contained with in this image group. It is a group of developing neuron developing along the radial projection of a cell in the optic tectum of an albino Xenopus laevis tadpole CNS, stage 47. 
 
 The images were acquired daily over 3 days and show dendritic arbor development.
 
 The cell was transfected with in vivo electroporation of plasmid DNA encoding eYFP ~24 hours before the first 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.
DOI: 10.6075/j0v40tcf
title: CIL:9969, Rattus, permanent cell line cell, permanent cell line cell, Kidney. In Cell Image Library

description: Preparation: living tissue
Relation to intact cell: dispersed cells in vitro
Item type: recorded image
Imaging mode: spinning disk confocal microscopy
Parameter imaged: fluorescence emission
Source of contrast: distribution of a specific protein
Visualization methods: EYFP; ECFP
Processing history: unprocessed raw data
description: Normal Rat Kidney (NRK) cells grown in culture expressing Galactosyl Transferase-YFP (GalT-YFP) and p58-CFP. This file is the merged CFP/YFP time series demonstrating the organization of the early secretory pathway (Golgi and intermediate compartment). 

Images were collected on a Zeiss Spinning Disk confocal as a single z slice over time with CFP imaged using 445ht and YFP imaged using 515ht and a 63X oil objective. Images were collected every 2 minutes. Exposure time: 515 was 50ms; 445 was 200ms: for both channels, the gain was 3, the camera intensification was 200, the laser neutral density was 10.
DOI: 10.6075/j0sf2v96
title: CIL:9928, Didinium nasutum, cell by organism, eukaryotic cell, Eukaryotic Protist, Ciliated Protist. In Cell Image Library

description: A high resolution tangential view of the surface of a non-dividing cell shows several ribbons of microtubules between the alveolar sac and the epiplasm. The thick fibrous layer associated with the epiplasm is evident, and the layer of mitochondria under the epiplasm is wrapped with rough ER. A peroxisome lies nearby and mucocysts and toxicysts are evident. TEM taken on 2/18/69 by R. Allen with Philips 300 operating at 60kV. Neg. 20,500X. The raw film was scanned with a Nikon Coolscan 9000ED. This image is suitable 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; unprocessed raw data
Data qualification: Raw;spatialmeasurements;intensitiesquantitation
DOI: 10.6075/j06972pv
title: CIL:9914, Opercularia [NCBITaxon:168247], Opercularia coarctata, 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; Print of negative scanned for photoshop
Data qualification: Processed;spatialmeasurements
description: The layer of contractile myonemes in Opercularia coarctata that covers most of the cytosolic side of the pellicle. Pellicular pores (the clathrin coated pits of ciliates) penetrate through this sheet. The ER is spread out against this sheet and, besides having decorated tubules, it bears thinner rails that lie between the ER and the myonemes and spindle-shaped mid pieces. For a description of these rails and mid pieces as they are found in peritrichs. Their function still remains to be determined. TEM taken on 6/7/69 by R. Allen with Philips 300 operating at 60kV. Neg. 14,800X. Bar = 0.5µm. A print of the negative was scanned and processed in Photoshop. This image is best used for qualitative analysis. A high resolution image (CIL:7331) 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 75nm thickness. Additional information available at (http://www5.pbrc.hawaii.edu/allen/).
DOI: 10.15468/dl.pvd64j
title: Occurrence Download

description: A dataset containing 519 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is one of (Europe, Asia)",
 "Month is one of (April, May, June, July, August, September, October)",
 "TaxonKey is Cygnus bewickii"
 ]
}

 The dataset includes 519 records from 26 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009723-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6075/j0r2103p
title: CIL:9968, Mus musculus, neuroblast (sensu Vertebrata). In Cell Image Library

description: Preparation: vibratome-sectioned tissue
Item type: recorded image
Imaging mode: fluorescence microscopy
Parameter imaged: fluorescence emission
Source of contrast: differences in adsorption or binding of stain
Visualization methods: DiI
Processing history: living tissue
description: Migration of neuronal precursors along from the subventricular zone to the olfactory bulb via the rostral migratory stream. Parasagittal slices were prepared from P10 mice (see Webb et al.,PMID: 12071004); they contained the entire RMS, which originates at the subventricular zone (SVZ) and ends at the center of the olfactory bulb (OB). The slices were cultured on a Millicell-CM membrane and small crystals of DiI were placed onto the RMS using a microneedle. A field in each slice was selected that retained good morphology and had fluorescently labeled migrating cells adjacent to the DiI crystals. Images were captured over 4 h using 0.20 s exposures. Images were acquired using a Nikon IX-70 inverted microscope fitted with a cooled CCD camera (Photometrics CH250). Fluorescence images were recorded every 5 min using a 10× objective. The movie was taken by Shin-ici Murase in the Rick Horwitz laboratory (University of Virginia). From Euro J Neuroscience. 27(7): 1585-1595.
DOI: 10.6075/j0416w76
title: CIL:9929, Didinium nasutum, 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: unprocessed raw data; raw unprocessed image
description: A high resolution image of toxicysts in the cytoplasm of cross sectioned non-dividing Didinium. Toxicysts (extrusomes) are multilayered cylinders that are discharged from the cytopharynx region during capture of prey such as Paramecium. Lipid is stored as large non-membrane enclosed dense bodies in the cytosol. TEM taken on 2/18/69 by R. Allen with Philips 300. Neg. 20,500X. The raw film was scanned with an Epson Perfection V750 Pro. 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/).
DOI: 10.6075/j0pk0f9x
title: CIL:9917, Opercularia [NCBITaxon:168247], Opercularia coarctata, cell by organism, eukaryotic cell, Eukryotic Protist, Ciliated Protist. In Cell Image Library

description: TEM taken on 6/10/69 by R. Allen with Philips 300 operating at 60kV. Neg. 11,800X. Bar = 1.0µm. A print of the negative was scanned and processed in Photoshop. This image is best used for qualitative analysis. A high resolution image (CIL:7333) 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 75nm thickness.

Additional information available at (http://www5.pbrc.hawaii.edu/allen/).
description: Image of the scopula, the stalk forming region at the aboral end of the cell body of Opercularia coarctata. A group of basal bodies each gives rise to a modified cilium that gives rise to a cylinder of striated fibrous 'straws' that occupy the lumen of the non-contractile stalk. This image shows a basal body of the trochal region, the end of the empty nascent food vacuole tube that is surrounded by lamellar microtubules that arise from the cytopharynx, the macronucleus, myonemes, and a perioral kinetid.
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 of negative scanned for photoshop
Data qualification: Processed;spatialmeasurements
DOI: 10.6075/j0319v1x
title: CIL:9912, Opercularia [NCBITaxon:168247], Opercularia coarctata, cell by organism, eukaryotic cell, Eukaryotic Protist, Ciliated Protist. In Cell Image Library

description: This image shows elements of myonemal fibers which lie next to the epiplasm that lies internal to the plasma membrane and alveoli. A close association of the ER with the myonemes is seen. The cytosol is filled with ribosomes, peroxisomes, and mitochondria. The ER next to the oral region provides a site for formation of elements of the Golgi complex. TEM taken on 6/11/69 by R. Allen with Philips 300 operating at 60KV. Neg. 14,800X. Bar = 0.5µm. A print of the negative was scanned and processed in Photoshop. This image is best used for qualitative analysis. A high resolution image (CIL:7339) 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 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 of negative scanned for photoshop
Data qualification: Processed;spatialmeasurements
DOI: 10.6075/j0sb44wv
title: CIL:9973, Rattus, permanent cell line cell, permanent cell line cell, Kidney. In Cell Image Library

description: Normal Rat Kidney (NRK) cells grown in culture expressing Galactosyl Transferase-YFP (GalT-YFP) and p58-CFP. This file is the YFP time series demonstrating the organization of the early secretory pathway (Golgi and intermediate compartment). 

Images were collected on a Zeiss Spinning Disk confocal as a single z slice over time with CFP imaged using 445ht and YFP imaged using 515ht and a 63X oil objective. Images were collected every 2 minutes. Exposure time: 515 was 50ms; 445 was 200ms: for both channels, the gain was 3, the camera intensification was 200, the laser neutral density was 10.
description: Preparation: living tissue
Relation to intact cell: dispersed cells in vitro
Item type: recorded image
Imaging mode: spinning disk confocal microscopy
Parameter imaged: fluorescence emission
Source of contrast: distribution of a specific protein
Visualization methods: EYFP
Processing history: unprocessed raw data
DOI: 10.6075/j0wq02z4
title: CIL:9972, Rattus, permanent cell line cell. In Cell Image Library

description: Normal Rat Kidney (NRK) cells grown in culture expressing Galactosyl Transferase-YFP (GalT-YFP) and p58-CFP. This file is the YFP time series demonstrating the organization of the early secretory pathway (Golgi and intermediate compartment). 

Images were collected on a Zeiss Spinning Disk confocal as a single z slice over time with CFP imaged using 445ht and YFP imaged using 515ht and a 63X oil objective. Images were collected every 2 minutes. Exposure time: 515 was 50ms; 445 was 200ms: for both channels, the gain was 3, the camera intensification was 200, the laser neutral density was 10.
description: Preparation: living tissue
Relation to intact cell: dispersed cells in vitro
Item type: recorded image
Imaging mode: spinning disk confocal microscopy
Parameter imaged: fluorescence emission
Source of contrast: distribution of a specific protein
Visualization methods: EYFP
Processing history: unprocessed raw data
DOI: 10.6075/j07m072m
title: CIL:9970, Rattus, permanent cell line cell. In Cell Image Library

description: Preparation: living tissue
Relation to intact cell: dispersed cells in vitro
Item type: recorded image
Imaging mode: spinning disk confocal microscopy
Parameter imaged: fluorescence emission
Source of contrast: distribution of a specific protein
Visualization methods: EYFP; ECFP
Processing history: unprocessed raw data
description: Normal Rat Kidney (NRK) cells grown in culture expressing Galactosyl Transferase-YFP (GalT-YFP) and p58-CFP. This file is the merged ECFP/EYFP time series demonstrating the organization of the early secretory pathway (Golgi and intermediate compartment). 

Images were collected on a Zeiss Spinning Disk confocal as a single z slice over time with CFP imaged using 445ht and YFP imaged using 515ht and a 63X oil objective. Images were collected every 2 minutes. Exposure time: 515 was 50ms; 445 was 200ms: for both channels, the gain was 3, the camera intensification was 200, the laser neutral density was 10.
DOI: 10.6075/j0cz36bm
title: CIL:9921, Opercularia [NCBITaxon:168247], Opercularia coarctata, cell by organism, eukaryotic cell, Eukaryotic Protista, Ciliated Protista. 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; Print of negative scanned for photoshop
description: An image of the micronucleus and macronucleus of Opercularia coarctata. The nuclear envelope has numerous pores, at least as many per unit length as in the macronucleus. Some areas of the outer membrane of the micronucleus envelope bare ribosomes. TEM taken on 6/11/69 by R. Allen with Philips 300 operating at 60kV. Neg. 23,200X. Bar = 0.5µm. A print of the negative was scanned and processed in Photoshop. This image is best used for qualitative analysis. A high resolution image (CIL:7337) 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 75nm thickness.

Additional information available at (http://www5.pbrc.hawaii.edu/allen/).
DOI: 10.6075/j0s181mf
title: CIL:9923, Opercularia [NCBITaxon:168247], Opercularia coarctata, 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; Print from negative scanned for Photoshop.
Data qualification: Processed;spatialmeasurements
description: The cytostome of Opercularia divides the peristome from the cytopharynx. The cytopharynx starts where the alveoli end in the oral region. TEM taken on 6/13/69 by R. Allen with Philips 300 operating at 60kV. Neg. 5,000X. Bar = 1.0µm. A print of the negative was scanned and processed in Photoshop. This image is best used for qualitative analysis. A high resolution image (CIL:7340) 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 75nm.

Additional information available at (http://www5.pbrc.hawaii.edu/allen/).
DOI: 10.15468/dl.w423fk
title: Occurrence Download

description: A dataset containing 498 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is one of (Asia, Europe)",
 "Month is one of (April, May, June, July, August, September, October)",
 "TaxonKey is Mergus albellus"
 ]
}

 The dataset includes 498 records from 34 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009722-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6075/j0ms3rzr
title: CIL:9920, Opercularia [NCBITaxon:168247], Opercularia coarctata, cell by organism, eukaryotic cell, Eukaryotic Protist, Ciliated Protist. In Cell Image Library

description: Image of the extracellular, non-contractile stalk of Opercularia coarctata that is formed from the scopula. Cylinders ('straws') of fibrous material in the lumen of the stalk are surrounded by an outer membrane-like sheath. The fibrous cylinders have diameters similar to those of basal bodies. TEM taken on 6/10/69 by R. Allen with Philips 300 operating at 60kV. Neg. 14,800X. Bar = 0.5µm. A print of the negative was scanned and processed in Photoshop. This image is best used for qualitative analysis. A high resolution image (CIL:7455) 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 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 of negative scanned for photoshop
Data qualification: Processed;spatialmeasurements