cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6075/j0hh6jf0
title: CIL:37383, damselfly, flight muscle cell. In Cell Image Library

description: Preparation: glutaraldehyde fixed tissue; tissue in epoxy resin embedment
Relation to intact cell: microtome-sectioned tissue
Item type: transmission electron microscopy (TEM)
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
Processing history: digitized negative film
Data qualification: Raw;spatialmeasurements
description: Longitudinal and cross sections showing ribbon like myofibrils regularly alternating with layers of mitochondria and SR/T tubules. Dyads are located in a grove of the mitochondrial surface. Negatives aere scanned on nikon 8000 at 4000dpi/6.3 micron scan step size, then reduced in size 4X for upload, for an effective pixel size of 25 micron.
 
 Technical details:
 Heads and tail removed, thorax bisected and immersed in 3% glutaraldehyde buffered in 0.1 M cacodylate buffer (pH7.2). Stored at 4C for several days. Muscle dissected out. Rinsed 3Xin buffer, postfixed in 2% PsO4 in buffer, for 1.5 hrs; rinsed 3 times in water, en-block stained in saturated aqueous uranyl acetate, embedded in Spurr. Thin sections stained in uranyl acetate and lead and examined in a Philips 410 Microscope.
 
 Reference for the image:
Loesser, K.E., Castellani, L. and Franzini-Armstrong, C. Disposition of junctional feet in muscles of invertebrates. J. Muscle Research Cell Motility 13:161-173, 199
DOI: 10.6075/j0x34w5c
title: CIL:37408, Danio rerio. In Cell Image Library

description: Zebrafish embryo at tailbud stage The sequence begins at the level of the axial hypoblast. The hypoblast has separated into paraxial and axial mesoderm. The axial mesoderm (chorda mesoderm) is the presumptive notochord. Chorda mesodermal cells intercalate in a medial-lateral fashion to form the notochord. The paraxial mesoderm become furrowed into pre-somitic segments. Additional somitic furrows form during the sequence. In the right hand portion of the image, cells in the neuroectoderm migrate towards the embryonic midline. These cells eventually are incorporated into the hindbrain rudiment.
 This video made available by Mark Cooper thru Zebrafish - The Living Laboratory. The videos in this group can also be found in the Developmental Landmarks page of the Fishscope web site.
description: Preparation: living tissue
Relation to intact cell: whole mounted tissue
Item type: recorded image
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/j0445k4s
title: CIL:37403, Danio rerio, yolk cell. In Cell Image Library

description: Sixteen cell stage Zebrafish embryo. The first frame shows cells at metaphase. The sequence covers the next four cell cycles. In each prophase, there is a rapid onset of yolk platelet motility. Yolk material is fragmented off the yolk cell and drawn into the outermost blastomeres through cytoplasmic bridges. This video made available by Mark Cooper thru Zebrafish - The Living Laboratory. The videos in this group can also be found in the Developmental Landmarks page of the Fishscope web site.
description: Frames were taken at 30 second intervals.
description: Preparation: living tissue
Relation to intact cell: whole mounted tissue
Item type: recorded image
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: 10.15468/dl.wbzpxh
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Chloropicon roscoffensis, Skeletonema menzelii, Hemiarma marina, Cymbastela coralliophila, Sahlingia subintegra, Nemalecium lighti, Micromonas commoda)",
 "StateProvince is Western Australia",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "BasisOfRecord is one of (Occurrence evidence, Material sample, Human Observation, Specimen, Machine Observation, Observation)"
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009443-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6075/j0zs2v4z
title: CIL:37402, Danio rerio, yolk cell. In Cell Image Library

description: Four cell stage zebrafish embryo, stained with 100 micromolar Bodipy 505/515. In the upper portion of the image, the yolk cell contains large spherical yolk platelets. The blastomeres undergoing meroblastic cleavage in the lower portion of the image are joined by cytoplasmic bridges to the yolk cell. Cell nuclei are not stained by Bodipy 505/515, and thus appear as dark circles. Bodipy 505/515 partitions into yolk platelets which appear as white spheres and particles distributed through the cytoplasm of the blastomeres. Yolk platelets within the cytoplasm of the yolk cell are also intensely stained. During every prophase there is a major onset of motility of the yolk platelets. The platelets are pulled into tubular forms, sometimes fragmenting. During telophase and interphase, the platelets re-coalesce into spherical bodies. Larger yolk platelets tend to be localized in the peripheral cytoplasm of cleaving blastomeres. Also notice the periodic fragmentation of the yolk mass within the yolk cell. The sequence continues through 16-cell stage. This video made available by Mark Cooper thru Zebrafish - The Living Laboratory. The videos in this group can also be found in the Developmental Landmarks page of the Fishscope web site.
description: Preparation: living tissue
Relation to intact cell: whole mounted tissue
Item type: recorded image
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
description: Frames were taken at 20 second intervals using a 20X lens with 0.75 N.A.
DOI: 10.6084/m9.figshare.30497024.v3
title: Bandgap Independent Intrinsic Nonlinear Optical Response for Rational Materials Design

description: Nonlinear optical (NLO) phenomena play a pivotal role in materials research and technological advancements, particularly for optoelectronic modulation and advanced photonic devices. Accurate evaluation of intrinsic NLO responses is crucial for targeted material discovery and performance optimization. However, conventional NLO coefficients (<i>χ</i><sub><em>ijk</em></sub><sup>(2)</sup>) exhibit strong bandgap (<i>E</i><sub><em>g</em></sub>) dependence, fundamentally distorting their correlation with actual conversion efficiency (<i>η</i>). This limitation not only impedes fair performance comparisons across materials with different <i>E</i><sub><em>g</em></sub> values but also artificially amplifies the NLO capabilities of narrow-<i>E</i><sub><em>g</em></sub> systems. To address this critical challenge, we propose an intrinsic NLO metric <i>φ</i><sub><em>ijk</em></sub><i>=δ</i><sub><em>ijk</em></sub><i>·χ</i><sub><em>ii</em></sub><sup>(1)</sup>, incorporating a static Miller dispersion correction (<i>δ</i><sub><em>ijk</em></sub>) that enables cross-<i>E</i><sub>g</sub> evaluations and reveals structural limits of achievable <i>η</i> through fundamental parameter optimization. Our first-principles calculations, performed using our in-house NLOtools, demonstrate the advantage of <i>φ</i><sub><em>ijk</em></sub> over <i>χ</i><sub><em>ijk</em></sub><sup>(2)</sup> in decoupling <i>E</i><sub><em>g</em></sub> effects while establishing a robust framework for rational design. This framework is demonstrated through the rational design of KCuMoS<sub>4</sub>, where targeted skeletal reconstruction and elemental substitution yielded a superior intrinsic NLO potential, confirmed by its concurrently high <i>φ</i><sub><em>ijk</em></sub> and normalized <i>Φ</i><sub><em>ijk</em></sub> values. The favorable performance of KCuMoS<sub>4</sub> illustrates a route to mitigating the classic trade-off between <i>χ</i><sub><em>ijk</em></sub><sup>(2)</sup> and <i>E</i><sub><em>g</em></sub>, providing a practical methodology for the rational design of high-performance NLO materials.
DOI: 10.6075/j0ff3rp5
title: CIL:37397, damselfly, flight muscle cell. In Cell Image Library

description: Longitudinal and cross sections showing ribbon like myofibrils regularly alternating with layers of mitochondria and SR/T tubules. Dyads are located in a grove of the mitochondrial surface. Negatives aere scanned on nikon 8000 at 4000dpi/6.3 micron scan step size, then reduced in size 4X for upload, for an effective pixel size of 25 micron.
 
 Technical details:
 Heads and tail removed, thorax bisected and immersed in 3% glutaraldehyde buffered in 0.1 M cacodylate buffer (pH7.2). Stored at 4C for several days. Muscle dissected out. Rinsed 3Xin buffer, postfixed in 2% PsO4 in buffer, for 1.5 hrs; rinsed 3 times in water, en-block stained in saturated aqueous uranyl acetate, embedded in Spurr. Thin sections stained in uranyl acetate and lead and examined in a Philips 410 Microscope.
 
 Reference for the image:
Loesser, K.E., Castellani, L. and Franzini-Armstrong, C. Disposition of junctional feet in muscles of invertebrates. J. Muscle Research Cell Motility 13:161-173, 199
description: Preparation: glutaraldehyde fixed tissue; tissue in epoxy resin embedment
Relation to intact cell: microtome-sectioned tissue
Item type: transmission electron microscopy (TEM)
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
Processing history: digitized negative film
Data qualification: Raw;spatialmeasurements
DOI: 10.6075/j04x56gn
title: CIL:38601, Homo sapiens, fibroblast. In Cell Image Library

description: This differential interference contrast image (DIC) corresponds to the same image field as the 2-color photoactivation localization microscopy (PALM) image 38600. Bar is 2 microns. Image made available by Catherine and James Galbraith and corresponds to Figure 3 in PNAS U S A. 2007 Dec 18;104(51):20308-13.
description: Preparation: formaldehyde fixed tissue
Relation to intact cell: dispersed cells in vitro
Item type: recorded image
Imaging mode: differential interference contrast microscopy
Parameter imaged: optical path length gradient
Source of contrast: boundaries between regions with different refractive index
Visualization methods: visualization of contiguous regions
Processing history: smoothing filter
Data qualification: Processed
DOI: 10.6075/j0mg7n62
title: CIL:37933, Caenorhabditis elegans, early embryonic cell. In Cell Image Library

description: Preparation: living tissue
Relation to intact cell: whole mounted tissue
Item type: recorded image; time lapse microscopy
Imaging mode: widefield illumination; fluorescence microscopy
Parameter imaged: fluorescence emission
Source of contrast: distribution of a specific protein; compartmentalization of stain or label
Visualization methods: mCherryFP; EGFP; Hoechst
Processing history: unprocessed raw data
Data qualification: Raw;spatialmeasurements;intensitiesquantitation
description: Anterior and posterior regions of a C. elegans embryo are determined by PAR protein distribution. PAR-2, shown in green marks the posterior region of the embryo and PAR-6, shown in red, marks the anterior region. DNA is in blue. The embryo was treated with the drug cytochalasin D (disrupts the actin cytoskeleton) at frame 19. In the presence of the drug, PAR domains remain stable until anaphase when PAR-2 is lost to invaginations.
description: C. elegans embryo expressing mCherry::PAR-2 (green) and GFP::PAR-6 (red) was treated with cytochalasin-D. Embryo was made permeable by placing L4 larvae on F08F8.2(RNAi) plates for 20-24h. Images were captured by wide-field fluorescence microscopy (Zeiss Axioplan II, 63x/1.4 Oil PlanApochromat objective, Hamamatsu Orca-ER camera) at 30 second intervals. Time-lapse images correspond to Video1 (at 8 frames/second) and Fig 4C in J Cell Biol. 2011. 193(3): 583-594.
DOI: 10.6075/j0dj5d84
title: CIL:37932, Caenorhabditis elegans, early embryonic cell. In Cell Image Library

description: Anterior and posterior regions of a C. elegans embryo are determined by PAR protein distribution. PAR-2, shown in green marks the posterior region of the embryo and PAR-6, shown in red, marks the anterior region. The embryo was treated with the drug cytochalasin D that disrupts the actin cytoskeleton. Following drug treatment, the boundaries of PAR-2 and PAR-6 shift to the posterior as PAR-2 appears to be removed from the cortex and sequestered in cytoplasmic aggegates.
description: Preparation: living tissue
Relation to intact cell: whole mounted tissue
Item type: recorded image; time lapse microscopy
Imaging mode: spinning disk confocal microscopy; fluorescence microscopy
Parameter imaged: fluorescence emission
Source of contrast: distribution of a specific protein
Visualization methods: mCherryFP; EGFP
Processing history: unprocessed raw data
Data qualification: Raw;spatialmeasurements;intensitiesquantitation
description: C. elegans embryo expressing mCherry::PAR-2 (green) and GFP::PAR-6 (red) was treated with cytochalasin-D. Embryo was made permeable by placing L4 larvae on F08F8.2(RNAi) plates for 20-24h. Imaged using an Olympus IX71 equipped with a Yokogawa spinning-disk head using a 60X-1.35 oil UPlanSApo objective, 488- and 561-nm lasers (DPSS) and an Andor iXon camera with ImageIQ. Images captured at embryo midplane at 2-2.5 second intervals. Time-lapse images correspond to Fig 4I in J Cell Biol. 2011. 193(3): 583-594.
DOI: 10.6084/m9.figshare.30498746
title: Supplementary tables

description: The supplementary tables generated during this research.
DOI: 10.6084/m9.figshare.30498746.v1
title: Supplementary tables

description: The supplementary tables generated during this research.
DOI: 10.6075/j0697271
title: CIL:37910, Homo sapiens, epithelial cell. In Cell Image Library

description: Preparation: formaldehyde fixed tissue; detergent permeabilized
Relation to intact cell: dispersed cells in vitro
Item type: recorded image
Imaging mode: single-spot confocal microscopy; fluorescence microscopy
Parameter imaged: fluorescence emission
Source of contrast: distribution of a specific protein; distribution of epitope; compartmentalization of stain or label
Visualization methods: Alexa Fluor 488; Alexa Fluor 568; phalloidin; DRAQ5
Processing history: unprocessed raw data
Data qualification: Raw;spatialmeasurements;intensitiesquantitation
description: To induce apoptosis, cultured monolayers were exposed to 1,200 µJ/cm2 UV254 irradiation in a UV series II (Spectroline) and incubated for 2 h before fixation. Cells were fixed with 4% formaldehyde in PBS, permeabilized with 0.5% Triton, blocked and incubated with primary antibody for 1 h (50 µg/ml anti-S1P mAb (LPath Inc.)). Secondary antibody was Alexa Fluor 488 goat anti–mouse IgG. Actin was detected with Alexa Fluor 568–phalloidin (Invitrogen). DNA was detected with 5 µM DRAQ5 (Axxora). Confocal micrographs were obtained using a microscope (TCS SP5; Leica) with a 63x oil lens with an electron-multiplied cooled CCD camera 1,000 x 1,000, 8 x 8 mm2 driven by the IQ software (Andor Technologies). ImageJ was used to stack confocal sections into Z series that were then color combined and reconstructed into 3D image using MetaMorph (GE Healthcare). All images were processed further using ImageJ, Photoshop (Adobe), Illustrator (Adobe), and Quicktime Pro (Quicktime) software. This Z-series corresponds to Fig 4C from J Cell Biol. 2011. 193(4): 667-676
description: Extrusion of an apoptotic cell from an HBE monolayer as shown by confocal Z-series. This set of images shows late extrusion events (early and middle events are CIL# 37908 and 37909). The bioactive lipid sphingosine-1-phosphate (S1P) is produced by dying cells and activates actomyosin contraction in surrounding cells. The apoptotic, fragmenting nucleus is in blue, the actin-myosin ring at the basolateral surface is in red and S1P is in green.
DOI: 10.6075/j02v2f2q
title: CIL:36793, Paramecium caudatum, cell by organism, eukaryotic cell, Eukaryotic Protist, Ciliated Protist. In Cell Image Library

description: The micronucleus of Paramecium caudatum is distinctive from other closely related Paramecium such as P. multimicronucleatum and P. tetraurela. P. caudatum has only one micronucleus of a type in which the chromatin is spread equally throughout the nucleus as opposed to P. multimicronucleatum which has four very small micronuclei of the vesicular type and P. aurelia which has two micronuclei of the vesicular type where the chromatin forms a central electron opaque mass in the center of the nucleus. The micronucleus in this micrograph contains many microtubules so it may be in early division. The nuclear envelope has many nuclear pores. TEM taken on 3/23/73 by R. Allen with Hitachi HU11A operating at 75kV. Neg. 13,250X. Bar = 0.5µm.
description: Standard glutaraldehyde fixation followed by osmium tetroxide, dehydrated in alcohol and embedded in an epoxy resin. Microtome sections prepared at approximately 75nm thickness. The negative was printed to paper and the image was scanned to Photoshop. This digitized image is available for qualitative analysis. There is a high resolution version of this image in the library (CIL:39204) which is available for quantitative analysis. 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; uranyl salt; lead salt; osmium tetroxide
Processing history: recorded image; film; Print from negative scanned for Photoshop.
Data qualification: Processed
DOI: 10.6075/j0qv3kfk
title: CIL:36768, Paramecium caudatum, cell by organism, eukaryotic cell, Eukaryotic Protist, Ciliated Protist. In Cell Image Library

description: The highest concentration of parasomal sacs is found in the oral region associated with the three ciliary membranelles, called in Paramecium, the ventral amd dorsal peniculi and the quadrulus. This micrograph shows the four rows each of the two peniculi, dorsal and ventral, and a large accumulation of coated vesicles and early endosomal cisternae immediately below the basal bodies. Two rows of parasomal sacs border the closely packed peniculi and a third row separates the two peniculi. Four rows of parasomal sacs interdigitate with the 4 rows of more loosely associated cilia in the quadrulus. TEM taken on 1/25/74 by R. Allen with Hitachi HU11A operating at 75kV. Neg. 19,500X. Bar = 0.2µm.
description: Standard glutaraldehyde fixation followed by osmium tetroxide, dehydrated in alcohol and embedded in an epoxy resin. Microtome sections prepared at approximately 75nm thickness. The negative was printed to paper and the image was scanned to Photoshop. This digitized image is available for qualitative analysis. There is a high resolution version of this image in the library (CIL:39129) which is available for quantitative analysis. 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; uranyl salt; lead salt; osmium tetroxide
Processing history: recorded image; film; Print from negative scanned for Photoshop.
Data qualification: Processed
DOI: 10.6075/j07s7md1
title: CIL:36784, Paramecium caudatum, cell by organism, eukaryotic cell, Eukaryotic Protist, Ciliated Protist. In Cell Image Library

description: This micrograph shows that the discoidal vesicles meet the cytopharyngeal membrane edge-on where they fuse. Besides the ribbon of 12 microtubules abutting the membrane there is a second small ribbon of 2 or 3 microtubules lying against the cytopharyngeal membrane on the posterior side of each ribbon. This narrow ribbon does not curve away from the membrane but remains close to the membrane and its termination marks the boundary line between the cytopharynx and the nascent vacuole membrane. TEM taken on 7/27/73 by R. Allen with Hitachi HU11A operating at 75kV. Neg. 12,750X. Bar = 0.5µm. Published in J. Cell Biol. 63:904-922, 1974. Adapted with permission.
description: Standard glutaraldehyde fixation followed by osmium tetroxide, dehydrated in alcohol and embedded in an epoxy resin. Microtome sections prepared at approximately 75nm thickness. The negative was printed to paper and the image was scanned to Photoshop. This digitized image is available for qualitative analysis. There is a high resolution version of this image in the library (CIL:39168) which is available for quantitative analysis. 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; uranyl salt; osmium tetroxide; lead salt
Processing history: recorded image; film; Print from negative scanned for Photoshop.
Data qualification: Processed
DOI: 10.6075/j0zp453z
title: CIL:36783, Paramecium caudatum, cell by organism, eukaryotic cell, Eukaryotic Protist, Ciliated Protist. In Cell Image Library

description: Standard glutaraldehyde fixation followed by osmium tetroxide, dehydrated in alcohol and embedded in an epoxy resin. Microtome sections prepared at approximately 75nm thickness. The negative was printed to paper and the image was scanned to Photoshop. This digitized image is available for qualitative analysis. There is a high resolution version of this image in the library (CIL:39167) which is available for quantitative analysis. 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; uranyl salt; lead salt; osmium tetroxide
Processing history: recorded image; film; Print from negative scanned for Photoshop.
Data qualification: Processed
description: Detail of the tubular extension of the alveolus to the cytostomal cord and the whiskers that attach it to the cord. TEM taken on 4/10/74 by R. Allen with Hitachi HU11A operating at 75kV. Neg.18,500X. Bar = 0.2µm.