cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6075/j0wm1d8n
title: CIL: 54691. In Cell Image Library

description: Item type: recorded image
Imaging mode: Serial-section SEM
description: This image is a survey volume from cerebral cortex to identify cells exhibiting hallmarks for AD degeneration.
description: We examined the structural organization of cytoskeletal components and membrane systems in neurons of well preserved biopsy material from Alzheimer’s disease (AD). Information was obtained from thin sectioned material using conventional electron microscopy and from thick sections with the high voltage electron microscope.
DOI: 10.6075/j07w6c29
title: CIL: 54698, Bacteria E coli, MC1061. In Cell Image Library

description: sfGFP with TIR-EVLO site, scale bar 4 um.
description: Live cell bacterial imaging, expressing fluroescent protein in the cytoplasm.
description: Imaging mode: EPI on a Nikon TiE2 Hamamatsu ORCA Flash 4.0 sCMOS Camera and Nikon SR Apo TIRF 100x objective lens (NA 1.49)
DOI: 10.6075/j0f47p17
title: CIL: 54771, Homo sapiens, SBAD2 human iPSC line. In Cell Image Library

description: Epifluorescent imaging
description: Imaging mode: fluorescence microscopy
Visualization methods: epifluorescent imaging
description: DAPI staining
DOI: 10.6075/j01836p3
title: CIL: 54882. In Cell Image Library

description: The adoption of cell-based therapies into the clinic will require tremendous large-scale expansion to satisfy future demand, and bioreactor-microcarrier cultures are best suited to meet this challenge. A robust optical imaging and image-analysis assay to non-destructively quantify cell number and cell volume was developed using fluorescence and elastic scattering contrast. This assay was successfully applied to monitor cellular growth of induced pluripotent derived mesenchymal stem cells (iH-MSCs) attached to spherical hydrogel microcarriers over time. Elastic scattering and fluorescence lightsheet microscopy were used to quantify cell volume and cell number at varying spatial scales. The fluorescence-based assay is used as ground truth data to correlate the elastic scattering-based assay data.

Fig3b Fixed passage 4 day 7 ih-MSc microcarrier aggreagate.
description: Imaging mode: Zeiss Z.1 Lightsheet microscope (fluorescence and scattering)
Visualization methods: FIJI/ImageJ
description: ih-MSCs were cultured in a rotating wall vessel (RWV) bioreactor (RCCS-8DQ bioreactor (Synthecon, Houston, TX) fitted with 10 mL high aspect ratio vessels on custom-fabricated 120 ± 6.2 μm diameter gelMA microcarriers. For this purpose, approximately 110,000 gelMA microcarriers with a combined growth area of 50 cm2 and 5×104 cells (1000 cells/cm2) were incubated in 10 mL of CCM in the RWV bioreactor at 24 revolutions per minute. Half of the media was replaced with fresh CCM every 2 days. iH-MSCs fixed with 4% paraformaldehyde and fluorescently labeled with CellTracker Green (green), DRAQ-5 (blue), and DiI (gold) in the cytoplasm, nuclei, and plasma membrane, respectively. Label-free elastic scattering (white) and trasmitted light (grey) are also used to visualize the sample.

Passage 4 day 7 aggregate labeled with DiI in the plasma membrane.

Staining: Cytoplasm (green); plasma membrane (gold); nucleus (blue); whole cell (elastic scattering white)
DOI: 10.6075/j0sf2w2g
title: CIL: 54783, Homo sapiens, SBAD2 human iPSC line. In Cell Image Library

description: Epifluorescent imaging
description: Imaging mode: fluorescence microscopy
Visualization methods: epifluorescent imaging
description: DAPI staining
DOI: 10.6075/j0f76cfj
title: CIL: 54743, Homo sapiens, SBAD2 human iPSC line. In Cell Image Library

description: Live cell fluorescent imaging.
description: Imaging mode: confocal laser scanning microscopy
Visualization methods: confocal fluorescence imaging
description: iRFP720 expressing cells stained with viability indicator dye fluorescein diacetate (merged image).
DOI: 10.6075/j04x57n9
title: CIL: 54718. In Cell Image Library

description: We examined the structural organization of cytoskeletal components and membrane systems in neurons of well preserved biopsy material from Alzheimer’s disease (AD). Information was obtained from thin sectioned material using conventional electron microscopy and from thick sections with the high voltage electron microscope.
description: This image is a survey volume from the cerebral cortex to identify cells exhibiting hallmarks for AD degeneration.
description: Item type: EM tomogram
Imaging mode: Serial-section SEM
DOI: 10.6075/j0bg2nwn
title: CIL: 54734, Homo sapiens, SBAD2 human iPSC line. In Cell Image Library

description: iRFP720 expressing cells.
description: Live cell fluorescent imaging.
description: Imaging mode: confocal laser scanning microscopy
Visualization methods: confocal fluorescence imaging
DOI: 10.6075/j0sj1kfb
title: CIL: 54747, Homo sapiens, SBAD2 human iPSC line. In Cell Image Library

description: DAPI staining
description: Imaging mode: fluorescence microscopy
Visualization methods: epifluorescent imaging
description: Epifluorescent imaging
DOI: 10.6075/j0r2117w
title: CIL: 54668, Drosophila melanogaster, astrocytes (red). In Cell Image Library

description: Imaging mode: fluorescence microscopy
Visualization methods: Spinning Disk Confocal Imaging
description: Confocal image of the CNS of a D. melanogaster in the third instar larval stage after Spz3 KD, 20uM from the ventral surface, depicting astrocytes (red), cortex glia (green) and neuronal nuclei (blue). Our study examined the breakdown of the spatial segregation between cortex glia and astrocyte after disruption of cortex glial morphology. After knockdown of Spz3, a secreted neurotrophin, we observed aberrant infiltration by astrocytes into the cortex.
description: Astrocyte-specific RFP expression was achieved using driven using the Gal4-UAS binary system and the driver alrm. Cortex-glia specific GFP was achieved using the lexA-lexAop binary system and the cortex-glia specific driver wrapper932i-LexA (Coutinho-Budd et al., 2017). The larval CNS was dissected in the third instar larval stage, fixed with methanol, stained for RFP, GFP and Elav (neuronal nuclei marker), and mounted in VectaShield reagent. Slides were imaged on an Innovative Imaging Innovations (3i) spinning disk confocal microscope equipped with a Yokogawa CSX-W1 using a 63X oil objective.

Staining: Astrocytes (red); Cortex glia (green); Neurons (blue)
DOI: 10.6075/j0pz591c
title: CIL: 54843, Conchiformibius steedae, bacteria. In Cell Image Library

description: Leica TCS SP8 X; 63X Plan-Apochromat glycerine objective with a NA of 1.30 and a refraction index of 1.46.
description: C. steeade septum after consecutive incubation with BADA for 30 minutes and TADA for 30 minuntes 3D reconstruction.
description: Imaging mode: confocal microscopy
Visualization methods: fluorescent d amino acids
DOI: 10.6075/j06110hr
title: CIL: 54881. In Cell Image Library

description: ih-MSCs were cultured in a rotating wall vessel (RWV) bioreactor (RCCS-8DQ bioreactor (Synthecon, Houston, TX) fitted with 10 mL high aspect ratio vessels on custom-fabricated 120 ± 6.2 μm diameter gelMA microcarriers. For this purpose, approximately 110,000 gelMA microcarriers with a combined growth area of 50 cm2 and 5×104 cells (1000 cells/cm2) were incubated in 10 mL of CCM in the RWV bioreactor at 24 revolutions per minute. Half of the media was replaced with fresh CCM every 2 days. iH-MSCs fixed with 4% paraformaldehyde and fluorescently labeled with CellTracker Green (green), DRAQ-5 (blue), and DiI (gold) in the cytoplasm, nuclei, and plasma membrane, respectively. Label-free elastic scattering (white) and trasmitted light (grey) are also used to visualize the sample.

Passage 4 day 7 aggregate labeled with CellTracker Green in the cytoplasm.

Staining: Cytoplasm (green); plasma membrane (gold); nucleus (blue); whole cell (elastic scattering white)
description: The adoption of cell-based therapies into the clinic will require tremendous large-scale expansion to satisfy future demand, and bioreactor-microcarrier cultures are best suited to meet this challenge. A robust optical imaging and image-analysis assay to non-destructively quantify cell number and cell volume was developed using fluorescence and elastic scattering contrast. This assay was successfully applied to monitor cellular growth of induced pluripotent derived mesenchymal stem cells (iH-MSCs) attached to spherical hydrogel microcarriers over time. Elastic scattering and fluorescence lightsheet microscopy were used to quantify cell volume and cell number at varying spatial scales. The fluorescence-based assay is used as ground truth data to correlate the elastic scattering-based assay data.

Fig3a Fixed passage 4 day 7 ih-MSc microcarrier aggreagate.
description: Imaging mode: Zeiss Z.1 Lightsheet microscope (fluorescence and scattering)
Visualization methods: FIJI/ImageJ
DOI: 10.6075/j0t153h3
title: CIL: 54654, Drosophila melanogaster, astrocytes (red). In Cell Image Library

description: Imaging mode: fluorescence microscopy
Visualization methods: Spinning Disk Confocal Imaging
description: Astrocyte-specific RFP expression was achieved using driven using the Gal4-UAS binary system and the driver alrm. Cortex-glia specific GFP was achieved using the lexA-lexAop binary system and the cortex-glia specific driver wrapper932i-LexA (Coutinho-Budd et al., 2017). The larval CNS was dissected in the third instar larval stage, fixed with methanol, stained for RFP, GFP and Elav (neuronal nuclei marker), and mounted in VectaShield reagent. Slides were imaged on an Innovative Imaging Innovations (3i) spinning disk confocal microscope equipped with a Yokogawa CSX-W1 using a 63X oil objective.

Staining: Astrocytes (red); Cortex glia (green); Neurons (blue)
description: Confocal image of the CNS of a control D. melanogaster in the third instar larval stage, 0uM from the ventral surface, depicting astrocytes (red), cortex glia (green) and neuronal nuclei (blue). Our study examined the breakdown of the spatial segregation between cortex glial and astrocytes after disruption of cortex glial morphology. In a control animal, there is a separation between the two glial subtypes.
DOI: 10.6075/j0zw1krc
title: CIL: 54611. In Cell Image Library

description: Drosophila antennae were prepared as described in Tsang et al. After cryofixation by high-pressure freezing and freeze-substitution in a cocktail containing uranyl acetate and glutaraldehyde, cryofixed antennae were rehydrated gradually at ice temperature. Rehydrated samples were then subjected to DAB labeling reaction and stained using a high-contrast en bloc staining protocol. Next, the samples were dehydrated for resin infiltration and embedded in Durcupan epoxy, followed by imaging with X-ray microscopy and then serial block-face scanning electron microscopy.

The antenna was imaged using a Zeiss Gemini scanning electron microscope equipped with a Gatan 3View2XP and OnPoint backscatter detector. Images were acquired at 2.5 kV accelerating voltage with a 30 μm condenser aperture and 1.5 μsec dwell time; Z step size was 50 nm; pixel size was 5.06 nm; raster size was 12k x 16k; Z dimension was 658 sections, and local gas injection was set to 85%.Volume was aligned using cross correlation, segmented, and visualized using IMOD.
description: Item type: recorded image
Imaging mode: serial block face SEM (SBFSEM)
description: The biophysical properties of sensory neurons are influenced by their morphometric and morphological features, whose precise measurements require high-quality volume electron microscopy (EM). However, systematic surveys of these nanoscale characteristics for identified neurons are scarce. Taking advantage of the CryoChem method, which permits high-quality ultrastructural preservation of cryofixed and genetically labeled samples for volume EM, we acquired serial block-face scanning electron microscopy (SBEM) images of antennal tissues in which select ORNs expressed the APEX2 EM marker. These SEBEM datasets allow a systematic morphometric and morphological analysis of identified olfactory receptor neurons in Drosophila melanogaster.
DOI: 10.6075/j0v124g7
title: CIL: 54446, Homo sapiens, astrocyte. In Cell Image Library

description: Pathology load assessment of de-identified, human, post-mortem Alzheimer's disease and age-matched non-symptomatic donor prefrontal cortex brain tissue. We used these imaging data to inform donor stratification when we generated a large single nuclei RNA sequencing (snRNA-seq) dataset. Given we generated both imaging and snRNA-seq datasets the same location/piece of tissue for each donor, this gives us an unprecedented platform to evaluate cell type/subpopulation transcriptomes and relate them directly to their respective tissue microenvironments.
description: 5 um sections of FFPE prefrontal cortex tissue from post-mortem, human non-symptomatic donor labeled for glial fibrillary acidic protein (GFAP), a protein commonly used to identify astrocytes.
description: Imaging mode: bright-field microscopy
Visualization methods: GFAP IHC using HRP/DAB
DOI: 10.6075/j0z31zhv
title: CIL: 54770, Homo sapiens, SBAD2 human iPSC line. In Cell Image Library

description: Imaging mode: fluorescence microscopy
Visualization methods: epifluorescent imaging
description: Brachyury staining
description: Epifluorescent imaging
DOI: 10.6075/j0zs2wch
title: CIL: 54831, Alysiella filiformis, bacteria. In Cell Image Library

description: S. muelleri filaments after incubation with HADA for 60 minutes.
description: Imaging mode: fluorescence microscopy
Visualization methods: fluorescent d amino acids
description: Nikon Eclipse NI-U microscope equipped with a MFCool camera (Jenoptik).
DOI: 10.6075/j04j0f0k
title: CIL: 54822, Alysiella filiformis, bacteria. In Cell Image Library

description: Imaging mode: fluorescence microscopy
Visualization methods: fluorescent d amino acids
description: A. filiformis filaments after incubation with HADA for 30 minutes.
description: Nikon Eclipse NI-U microscope equipped with a MFCool camera (Jenoptik).
DOI: 10.6075/j0st7ppr
title: CIL: 54687, Drosophila melanogaster, astrocytes (red). In Cell Image Library

description: Astrocyte-specific RFP expression was achieved using driven using the Gal4-UAS binary system and the driver alrm. Cortex-glia specific GFP was achieved using the lexA-lexAop binary system and the cortex-glia specific driver wrapper932i-LexA (Coutinho-Budd et al., 2017). The larval CNS was dissected in the third instar larval stage, fixed with methanol, stained for RFP, GFP and Elav (neuronal nuclei marker), and mounted in VectaShield reagent. Slides were imaged on an Innovative Imaging Innovations (3i) spinning disk confocal microscope equipped with a Yokogawa CSX-W1 using a 63X oil objective.

Staining: Astrocytes (red); Cortex glia (green); Neurons (blue)
description: Imaging mode: fluorescence microscopy
Visualization methods: Spinning Disk Confocal Imaging
description: Confocal image of the CNS of a D. melanogaster in the third instar larval stage after αSNAP KD, 32uM from the ventral surface, depicting astrocytes (red), cortex glia (green) and neuronal nuclei (blue). Our study examined the breakdown of the spatial segregation between cortex glia and astrocytes after disruption of cortex glial morphology. After knockdown of αSNAP, a protein part of the vesicual transport pathway, we observed aberrant infiltration by astrocytes into the cortex.
DOI: 10.6075/j0vm4c48
title: CIL: 54700, Bacteria E coli, MC1061. In Cell Image Library

description: Imaging mode: EPI on a Nikon TiE2 Hamamatsu ORCA Flash 4.0 sCMOS Camera and Nikon SR Apo TIRF 100x objective lens (NA 1.49)
description: sfGFP with TIR-EVLO site, scale bar 4 um.
description: Live cell bacterial imaging, expressing fluroescent protein in the cytoplasm.
DOI: 10.6075/j0rj4jcv
title: CIL: 54753, Homo sapiens, SBAD2 human iPSC line. In Cell Image Library

description: Imaging mode: fluorescence microscopy
Visualization methods: epifluorescent imaging
description: Epifluorescent imaging
description: DAPI staining
DOI: 10.15468/dl.g9qnvt
title: Occurrence Download

description: A dataset containing 32 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Alligator sinensis Fauvel, 1879"
 ]
}

 The dataset includes 32 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0182009-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.9b46r3
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Pereskia aculeata Mill.",
 "HasCoordinate is true",
 "Country is Japan",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0194515-220831081235567/datasets/export for details.
DOI: 10.15468/dl.xcam6n
title: Occurrence Download

description: A dataset containing 9879 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Bibliographic records of Angola mammals"
 ]
}

 The dataset includes 9879 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0187061-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.xvfzte
title: Occurrence Download

description: A dataset containing 16563 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Opuntia ficus-indica (L.) Mill."
 ]
}

 The dataset includes 16563 records from 355 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0212987-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.6rrbhq
title: Occurrence Download

description: A dataset containing 40 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Samolus L.",
 "HasCoordinate is true",
 "Country is Japan",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 40 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0194529-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.793psd
title: Occurrence Download

description: A dataset containing 18 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Vertigo extima (Westerlund, 1876)"
 ]
}

 The dataset includes 18 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0212999-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.vnbmay
title: Occurrence Download

description: A dataset containing 158 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Pterostyrax corymbosus Siebold & Zucc.",
 "HasCoordinate is true",
 "Country is Japan",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 158 records from 16 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0194530-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.4ft948
title: Occurrence Download

description: A dataset containing 161 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Mexico",
 "TaxonKey is Ameiurus melas (Rafinesque, 1820)"
 ]
}

 The dataset includes 161 records from 20 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0182012-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.4sydvm
title: Occurrence Download

description: A dataset containing 24 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Medicago arabica (L.) Huds.",
 "HasCoordinate is true",
 "Country is Japan",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 24 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0194531-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.qmtz5f
title: Occurrence Download

description: A dataset containing 58824 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Belgium",
 "TaxonKey is one of (Aponogeton distachyos L.f., Cabomba caroliniana A.Gray, Cherax destructor Clark, 1936, Crassula helmsii (Kirk) Cockayne, Egeria densa Planch., Erythranthe guttata (DC.) G.L.Nesom, Faxonius immunis (Hagen, 1870), Faxonius juvenilis (Hagen, 1870), Faxonius rusticus (Girard, 1852), Faxonius virilis (Hagen, 1870), Heracleum mantegazzianum Sommier & Levier, Heracleum persicum Desf. ex Fisch., C.A.Mey. & Avé-Lall., Heracleum sosnowskyi Manden., Houttuynia cordata Thunb., Hydrocotyle ranunculoides L.fil., Impatiens glandulifera Royle, Koenigia polystachya (Wall. ex Meisn.) T.M.Schust. & Reveal, Lagarosiphon major (Ridl.) Moss, Ludwigia grandiflora (Michx.) Greuter & Burdet, Ludwigia peploides (Kunth) P.H.Raven, Lysichiton americanus Hultén & H.St.John, Myriophyllum aquaticum (Vell.) Verdc., Myriophyllum heterophyllum Michx., Petasites japonicus (Siebold & Zucc.) Maxim., Pontederia cordata L., Procambarus acutus (Girard, 1852), Procambarus clarkii (Girard, 1852), Procambarus virginalis Lyko, 2017, Saururus cernuus L., Zizania latifolia (Griseb.) Stapf)",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 58824 records from 62 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0213074-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.rx5zrv
title: Occurrence Download

description: A dataset containing 135 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Human Observation, Specimen)",
 "Geometry POLYGON((119.9723 12.75664,116.02914 8.74885,118.20645 6.86357,121.02821 11.77342,119.9723 12.75664))",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "TaxonKey is Barbourula busuangensis Taylor & Noble, 1924"
 ]
}

 The dataset includes 135 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0182061-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.rq57sd
title: Occurrence Download

description: A dataset containing 1253 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is EOD – eBird Observation Dataset",
 "Geometry POLYGON((10.01636 45.63409,10.04476 45.63409,10.04476 45.65648,10.01636 45.65648,10.01636 45.63409))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "Year 2000-2023"
 ]
}

 The dataset includes 1253 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0243211-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.xrhuxd
title: Occurrence Download

description: A dataset containing 28 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Kefersteinia lactea (Rchb.f.) Schltr."
 ]
}

 The dataset includes 28 records from 16 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000877-230530130749713/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.