cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.25549/inscriptifact-ouc112048506
title: Cuneiform Tablet 1913.14.1506, Spurlock 1913.14.1506

description: [Text Description:] Account concerning silver, barley, and refined bitumen ❧ [Text or Publication Number Note:] Spurlock 1913.14.1506; CDLI P421358 ❧ [Medium:] Clay ❧ [Script Note:] Non-Alphabetic Cuneiform ❧ [Physical Object Description:] Yellowish White (10YR 9/2) Light Brown (5YR 6.5/4) Dark Gray (N 3/ 6.6% R) ❧ [Physical Object Note:] 10.1 x 6.9 x 2.9 cm (213g)
DOI: 10.15468/dl.9v8uw4
title: Occurrence Download

description: A dataset containing 899975 species occurrences available in GBIF matching the query:
{
 "and" : [
 "OccurrenceStatus is Present",
 "TaxonKey is one of (Trifolium pratense L., Trifolium nigrescens Viv.)"
 ]
}

 The dataset includes 899975 records from 2441 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009307-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5517/cc4cr8h
title: CCDC 130456: Experimental Crystal Structure Determination

description: Related Article: M.W.Eknoian, T.R.Webb, S.D.Worley, J.R.Fleury, S.D.Maddox|1998|Acta Crystallogr.,Sect.C:Cryst.Struct.Commun.|54|1529|doi:10.1107/S0108270198005654
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: 10.5517/cc4ctmx
title: CCDC 130529: Experimental Crystal Structure Determination

description: Related Article: T.Adachi, J.-I.Mizoguchi, Y.Hayashi, Y.Yamashoji, N.Kanehisa, Y.Kai, Y.Inoue|1998|Acta Crystallogr.,Sect.C:Cryst.Struct.Commun.|54|1527|doi:10.1107/S0108270198003722
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: 10.5517/cc4cr9j
title: CCDC 130457: Experimental Crystal Structure Determination

description: Related Article: M.W.Eknoian, T.R.Webb, S.D.Worley, J.R.Fleury, S.D.Maddox|1998|Acta Crystallogr.,Sect.C:Cryst.Struct.Commun.|54|1529|doi:10.1107/S0108270198005654
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: 10.6075/j0w95818
title: CIL:24804, Xenopus laevis, keratocyte. In Cell Image Library

description: Procedures for detergent extraction, immunostaining, S1 decoration, light, and EM were described previously (Svitkina et al., 1995, 1996, 1997;Verkhovsky et al., 1995; Svitkina and Borisy, 1998).
description: Preparation: permeabilized tissue; glutaraldehyde fixed tissue; phalloidin
Relation to intact cell: dispersed cells in vitro
Item type: recorded image
Imaging mode: transmission electron microscopy (TEM)
Parameter imaged: optical path length gradient
Source of contrast: boundaries between regions with different refractive index
Visualization methods: shadowing and plating; platinum replica
Processing history: unprocessed raw data
description: Differential response of lamellipodial actin network to latrunculin a (LA), a binder of monomeric actin. This electron micrograph of a Xenopus keratocyte)lamellipodium treated with LA (0.1 μM for 30 min) reveals actin depletion from the lamellipodial rear. A similar image of an LA treated fibroblast is available as CIL 24805. Image corresponds to Figure 7d from J Cell Biol. 1999 May 31;145(5):1009-26.
DOI: 10.6075/j06q1w0p
title: CIL:24802, Xenopus laevis, fibroblast. In Cell Image Library

description: Preparation: permeabilized tissue; glutaraldehyde fixed tissue
Relation to intact cell: dispersed cell in vitro
Item type: recorded image
Imaging mode: transmission electron microscopy (TEM)
Parameter imaged: optical path length gradient
Source of contrast: differences in deposition of metal shadow
Visualization methods: shadowing and plating; platinum replica
Processing history: unprocessed raw data
description: Structural differentiation of actin network in lamellipodium. Electon micrograph Xenopus fibroblast after unprotected extraction without polyethelene glycol. Actin network at lamellipodial rear disassembled in the course of unprotected extraction, whereas front zone remained as dense as in control cells (CIL 24801). Image corresponds to Figure 6e from J Cell Biol. 1999 May 31;145(5):1009-26.
description: Procedures for detergent extraction, immunostaining, S1 decoration, light, and EM were described previously (Svitkina et al., 1995, 1996, 1997;Verkhovsky et al., 1995; Svitkina and Borisy, 1998).
DOI: 10.6075/j0x34wbm
title: CIL:24797, fibroblast. In Cell Image Library

description: Preparation: glutaraldehyde fixed tissue
Relation to intact cell: dispersed cells in vitro
Item type: recorded image
Imaging mode: transmission electron microscopy (TEM)
Parameter imaged: optical path length gradient
Source of contrast: differences in deposition of metal shadow
Visualization methods: shadowing and plating; primary antibody plus labeled secondary antibody; immuno-gold
Processing history: unprocessed raw data
description: Localization of Arp2/3 complex in the lamellioidia of afibroblast . Staining with p21 antibody and 10 nm gold secondary antibody. CIL 24794 shows a fluorescence microsopy image of Arp2/3 localization, also in fibroblast. CIL 24794 and 24795 show corresponding images in Xenopus keratocytes. Image corresponds to Figure 3h from J Cell Biol. 1999 May 31;145(5):1009-26.
description: Procedures for detergent extraction, immunostaining, S1 decoration, light, and EM were described previously (Svitkina et al., 1995, 1996, 1997;Verkhovsky et al., 1995; Svitkina and Borisy, 1998).
DOI: 10.6075/j0c53jqr
title: CIL:24801, Xenopus laevis, fibroblast. In Cell Image Library

description: Preparation: permeabilized tissue; glutaraldehyde fixed tissue; phalloidin; polyethelene glycol
Relation to intact cell: dispersed cells in vitro
Item type: recorded image
Imaging mode: transmission electron microscopy (TEM)
Parameter imaged: optical path length gradient
Source of contrast: differences in deposition of metal shadow
Visualization methods: shadowing and plating; platinum replica
Processing history: unprocessed raw data
description: Procedures for detergent extraction, immunostaining, S1 decoration, light, and EM were described previously (Svitkina et al., 1995, 1996, 1997;Verkhovsky et al., 1995; Svitkina and Borisy, 1998).
description: Structural differentiation of actin network in lamellipodium. Electron micrograph of Xenopus fibroblasts after regular extraction in the presence of polyethelene glycol (PEG) and phalloidin. While the actin network in the front zone of these cels remains dense, the actin network at the lamellipodial rear disassembled in the course of unprotected extraction (CIL 24800). Image corresponds to Figure 6c from J Cell Biol. 1999 May 31;145(5):1009-26.
DOI: 10.6075/j0qf8rrf
title: CIL:24795, Xenopus laevis, keratocyte. In Cell Image Library

description: Preparation: glutaraldehyde fixed tissue
Relation to intact cell: dispersed cells in vitro
Item type: recorded image
Imaging mode: transmission electron microscopy (TEM)
Parameter imaged: optical path length gradient
Source of contrast: differences in deposition of metal shadow
Visualization methods: shadowing and plating; primary antibody plus labeled secondary antibody; immuno-gold
Processing history: unprocessed raw data
description: Localization of Arp2/3 complex in the lamellioidia of a Xenopus keratocytes. Staining with p21 antibody and 10 nm gold secondary antibody. CIL 24794 shows a fluorescence microsopy image of Arp2/3 localization in a Xenopus keratocyte. CIL 24796 and 24797 show corresponding images in fibroblasts. Image corresponds to Figure 3d from J Cell Biol. 1999 May 31;145(5):1009-26.
description: Procedures for detergent extraction, immunostaining, S1 decoration, light, and EM were described previously (Svitkina et al., 1995, 1996, 1997;Verkhovsky et al., 1995; Svitkina and Borisy, 1998).
DOI: 10.6075/j08c9v1x
title: CIL:24790. In Cell Image Library

description: Improved visualization of actin filament branching in lamellipodia. EM of keratocyte or fibroblast lamellipodial actin network after cytochalasin D treatment (0.2 μM for 30 min or 0.5 μM for 10 min) Image corresponds to Figure 2a from J Cell Biol. 1999 May 31;145(5):1009-26.
description: Preparation: permeabilized tissue; glutaraldehyde fixed tissue; phalloidin
Relation to intact cell: dispersed cells in vitro
Item type: recorded image
Imaging mode: transmission electron microscopy (TEM)
Parameter imaged: optical path length gradient
Source of contrast: boundaries between regions with different refractive index
Visualization methods: shadowing and plating; platinum replica
Processing history: unprocessed raw data
description: Procedures for detergent extraction, immunostaining, S1 decoration, light, and EM were described previously (Svitkina et al., 1995, 1996, 1997;Verkhovsky et al., 1995; Svitkina and Borisy, 1998).
DOI: 10.6075/j0j10211
title: CIL:24788, fibroblast. In Cell Image Library

description: Preparation: permeabilized tissue; glutaraldehyde fixed tissue; phalloidin; polyethylene glycol
Relation to intact cell: dispersed cells in vitro
Item type: recorded image
Imaging mode: transmission electron microscopy (TEM)
Parameter imaged: optical path length gradient
Source of contrast: differences in deposition of metal shadow
Visualization methods: shadowing and plating; platinum replica
Processing history: unprocessed raw data
description: Multiple branching of actin filaments in lamellipodia of vertebrate fibroblasts. This image shows an overview of the leading edge, and CIL 24789 shows enlargements of local regions of this platinum replica. CIL 24786 shows similar overview and local enlargements for the lamellipodia of a Xenopus keratocyte. Image corresponds to Figure 1h from J Cell Biol. 1999 May 31;145(5):1009-26.
description: Procedures for detergent extraction, immunostaining, S1 decoration, light, and EM were described previously (Svitkina et al., 1995, 1996, 1997;Verkhovsky et al., 1995; Svitkina and Borisy, 1998).
DOI: 10.6075/j0d7995z
title: CIL:24821, Saccharomyces cerevisiae S288c. In Cell Image Library

description: Intracellular localization of GFP-GOLPH3 R171A, R174A mutant in BY4742 sac1∆ vps74∆ mutant. SAC1 encodes an integral membrane phosphoinositide phosphatase and in the sac1∆ vps74∆ mutant, GFP-GOLPH3 localizes, in addition to the Golgi apparatus, to nuclear ER and cortical ER and/or PM (CIL# 24819). This localization of GFP-GOLPH3 is lost when two amino acids are mutated in the sulfate-binding pocket. This study demonstrates that the sulfate-binding pocket of Vps74 and GOLPH3 mediates PtdIns4P-binding and is essential for function. 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 Fig4A GFP-GOLPH3 R171A R174A/sac1∆ panel in J Cell Biol. 187: 967-975. 2009. Images in Fig 4A include CIL#s 13449, 13451, 13453, 13455, 13456, 13457, 24816, 24817, 24818, 24819, 24820, 24821.
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
DOI: 10.6075/j0d7999r
title: CIL:24815, 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-GOLPH3 in BY4742 sac1∆ vps74∆. SAC1 encodes an integral membrane phosphoinositide phosphatase that is localized to the ER and Golgi. In the sac1∆ vps74∆ mutant, GFP-GOLPH3 localizes, in addition to the Golgi apparatus, to nuclear ER and cortical ER and/or PM. Thus, correct Golgi localization of Vps74 (see CIL# 24812 for GFP-Vps74 in sac1∆ vps74∆ mutant) and GOLPH3 requires synthesis of PtdIns4P in the Golgi by Pik1-Frq1 and maintenance of low PtdIns4P levels in non-Golgi membranes by the Sac1 lipid phosphatase. 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 Fig1B GOLPH3/sac1∆ panel in J Cell Biol. 187: 967-975. 2009. Images in Fig 1B include CIL#s 24815, 24812, 24813.
DOI: 10.6075/j00000z0
title: CIL:24919, Homo sapiens, epithelial cell, cervical carcinoma. 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: fluorescence microscopy
Parameter imaged: fluorescence emission
Source of contrast: distribution of a specific protein; compartmentalization of stain or label
Visualization methods: Alexa Fluor 488; Alexa Fluor 568; 4',6-diamidino-2-phenylindole (DAPI); primary antibody plus labeled secondary antibody; c-MYC peptide tag; HA peptide tag
Data qualification: Processed;spatialmeasurements
description: HeLa cells expressing Myc-GnT1IP-L (Myc-tagged GlcNAcT-1 inhibitory protein, long transcript, membrane-anchored) (red) and GlcNAcT-1-HA (green) were treated with cycloheximide and brefeldin A to cause retrograde transport of Golgi enzymes into the ER. Both proteins had punctate costaining around the nucleus, typical of ERGIC localization, in addition to reticular costaining of the ER after BFA treatment. Transiently expressed Myc-GnT1IP-L is normally primarily localized in the Golgi and ERGIC and partially in the ER (shown in Fig 4; J Cell Biol. 190: 893-910, 2010.). GlcNAcT-1 is normally a resident of the medial Golgi. Transfected HeLa cells were fixed in 3% paraformaldehyde, blocked with 0.2% Triton X-100, 1% FBS, 0.5% BSA in PBS with Ca[2+] and Mg[2+], followed by incubation in primary antibodies (anti-Myc mouse mAb, 9E10 (Covance) and anti–HA mouse mAb, HA.11 (Covance)) and secondary antibodies (Alexa 568 and Alexa 488) and DAPI (blue) to stain nuclei. Cells were mounted using Fluoromount (SouthernBiotech). Immunofluorescent images were digitally acquired on an inverted microscope (Axiovert 200M; Carl Zeiss, Inc.) coupled to a 12-bit cooled charge-coupled device camera (AxioCam MRm Rev. 3; Carl Zeiss, Inc.) controlled by Axiovision software (AxioVs40, version 4.7.2.0; Carl Zeiss, Inc.), using a 100x/1.3 NA oil immersion objective (EC Plan-NeoFluar; Carl Zeiss, Inc.), and saved as tiff files (1388 × 1040, 8 bit). All pictures were treated identically using Adobe Photoshop to remove background and adjust contrast. This image corresponds to Figure 5E, middle panel (merge) in J Cell Biol. 190: 893-910, 2010. Images in Fig 5 include CIL#s 13658, 24919, 24920.
DOI: 10.6075/j0th8kfz
title: CIL:24785, Xenopus laevis, fibroblast. In Cell Image Library

description: Preparation: permeabilized tissue; glutaraldehyde fixed tissue; polyethylene glycol
Relation to intact cell: dispersed cell in vitro
Item type: recorded image
Imaging mode: transmission electron microscopy (TEM)
Parameter imaged: optical path length gradient
Source of contrast: differences in deposition of metal shadow
Visualization methods: shadowing and plating; primary antibody plus labeled secondary antibody; platinum replica; immuno gold
Processing history: unprocessed raw data
description: Procedures for detergent extraction, immunostaining, S1 decoration, light, and EM were described previously (Svitkina et al., 1995, 1996, 1997;Verkhovsky et al., 1995; Svitkina and Borisy, 1998).
description: Localization of XAC (Xenopus ADF/cofilin) in Xenopus fibroblasts. Immuno-EM with XAC antibody at high magnification. Low magnification view is available at CIL 24784. Nucleus and surrounding regions look bright because of high content of cellular proteins, which creates high electron density (brightness in inverted contrast). Immunogold-labeling in these central regions is very low. Image corresponds to Figure 10i from J Cell Biol. 1999 May 31;145(5):1009-26.
DOI: 10.6075/j00v8bnr
title: CIL:24794, Xenopus laevis, keratocyte. In Cell Image Library

description: Preparation: glutaraldehyde fixed tissue; methanol fixed tissue
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 a specific protein
Visualization methods: Fluorescein (FITC); Tetramethyl rhodamine (TRITC); phalloidin; primary antibody plus labeled secondary antibody
Processing history: unprocessed raw data
description: Procedures for detergent extraction, immunostaining, S1 decoration, light, and EM were described previously (Svitkina et al., 1995, 1996, 1997;Verkhovsky et al., 1995; Svitkina and Borisy, 1998).
description: Localization of Arp2/3 complex in the lamellioidia of a Xenopus keratocytes. Staining with p21 antibody (green) and TRIT-phalloidin (red) shows Arp2/3 complex highly enriched in lamellipodia. CIL 24795 shows an immuno EM image of Arp2/3 localization in a Xenopus keratocyte. CIL 24796 and 24797 show corresponding images in fibroblasts. Image corresponds to Figure 3a-c from J Cell Biol. 1999 May 31;145(5):1009-26.
DOI: 10.6075/j0k936nz
title: CIL:24780, Rattus norvegicus, epithelial cell. In Cell Image Library

description: Preparation: tissue in epoxy resin embedment; osmium tetroxide fixed tissue; glutaraldehyde fixed tissue
Relation to intact cell: microtome-sectioned tissue
Item type: transmission electron microscopy (TEM)
Imaging mode: illumination by electrons; detection of electrons
Parameter imaged: electron density
Source of contrast: stain with broad specificity
Visualization methods: uranyl salt; lead salt
Processing history: unprocessed raw data
Data qualification: Raw
description: Cells were grown on 100-mesh gold EM grids, and maintained at 15°C for 4 hours before plunge freezing in liquid nitrogen (BalTec HPM-010), followed by freeze-substitution (1% glutaraldehyde, 0.1% tannic acid in acetone, replaced with 4% osmium tetroxide and 0.01% uranyl acetate), then embedded in Epon-Araldite and sectioned at 40nm (UltraCut-UCT, Leica). Sections were transferred to formvar-coated copper-rhodium slot grids (EMS) and stained with 2% aqueous uranyl acetate and Reynold's lead citrate. Images were acquired at a magnification of 13,000X with an FEI Tecnai TF20 transmission EM. For additional details refer to: Mol Biol Cell 13:2810-2825.
description: This image is one from a set of 40nm thick serial sections through part of a Golgi ribbon from a normal rat kidney cell, generated using transmission electron microscopy following incubation at 15°C to block transport out of the Golgi complex. Following temperature block, large bulging domains appear on the three trans-most cisternae. The images in this set were used in 3-dimensional reconstructions of the Golgi apparatus. For more information see: Ladinsky et al. (2002) Structure of the Golgi and distribution of reporter molecules at 20°C reveals the complexity of the exit compartments, Mol Biol Cell 13:2810-2825. The other images from this serial set are included in this image group.
DOI: 10.6075/j0fx787w
title: CIL:24783, Xenopus laevis, fibroblast. In Cell Image Library

description: Procedures for detergent extraction, immunostaining, S1 decoration, light, and EM were described previously (Svitkina et al., 1995, 1996, 1997;Verkhovsky et al., 1995; Svitkina and Borisy, 1998).
description: Preparation: glutaraldehyde fixed tissue; permeabilized tissue; polyethylene glycol
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 a specific protein; distribution of epitope
Visualization methods: Fluorescein (FITC); Tetramethyl rhodamine (TRITC); phalloidin; primary antibody plus labeled secondary antibody
Processing history: unprocessed raw data
description: Localization of XAC (Xenopus ADF/cofilin) in Xenopus fibroblasts. Fluorescence microscopy of a cell fragment double stained with XAC antibody (green) and TRITC-phalloidin (red). XAC is distributed throughout the entire lamellipodium. Image corresponds to Figure 10a-c from J Cell Biol. 1999 May 31;145(5):1009-26.
DOI: 10.6075/j0959gqk
title: CIL:24777, Rattus norvegicus, epithelial cell. In Cell Image Library

description: This image is one from a set of 40nm thick serial sections through part of a Golgi ribbon from a normal rat kidney cell, generated using transmission electron microscopy following incubation at 15°C to block transport out of the Golgi complex. Following temperature block, large bulging domains appear on the three trans-most cisternae. The images in this set were used in 3-dimensional reconstructions of the Golgi apparatus. For more information see: Ladinsky et al. (2002) Structure of the Golgi and distribution of reporter molecules at 20°C reveals the complexity of the exit compartments, Mol Biol Cell 13:2810-2825. The other images from this serial set are included in this image group.
description: Cells were grown on 100-mesh gold EM grids, and maintained at 15°C for 4 hours before plunge freezing in liquid nitrogen (BalTec HPM-010), followed by freeze-substitution (1% glutaraldehyde, 0.1% tannic acid in acetone, replaced with 4% osmium tetroxide and 0.01% uranyl acetate), then embedded in Epon-Araldite and sectioned at 40nm (UltraCut-UCT, Leica). Sections were transferred to formvar-coated copper-rhodium slot grids (EMS) and stained with 2% aqueous uranyl acetate and Reynold's lead citrate. Images were acquired at a magnification of 13,000X with an FEI Tecnai TF20 transmission EM. For additional details refer to: Mol Biol Cell 13:2810-2825.
description: Preparation: tissue in epoxy resin embedment; osmium tetroxide fixed tissue; glutaraldehyde fixed tissue
Relation to intact cell: microtome-sectioned tissue
Item type: transmission electron microscopy (TEM)
Imaging mode: illumination by electrons; detection of electrons
Parameter imaged: electron density
Source of contrast: stain with broad specificity
Visualization methods: uranyl salt; lead salt
Processing history: unprocessed raw data
Data qualification: Raw