cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6075/j0s46rt3
title: CIL: 54628, Mus musculus, oocyte. In Cell Image Library

description: Oocytes fixed with 2% paraformaldehyde and 1% picric acid. Immunolabelled with anti-Calreticulin (green), Alexafluor 568-phalloidin (red), and Hoechst 33342 (blue).
description: FIG. 3At, 3Aeq Maturation of cortical ER clusters during different stages of fertilization.
description: Imaging mode: whole mount confocal image
Visualization methods: Laser Scan Confocal; PMT
DOI: 10.6075/j0hq3zsc
title: CIL: 54817, Alysiella filiformis, bacteria. In Cell Image Library

description: Imaging mode: fluorescence microscopy
Visualization methods: fluorescent d amino acids
description: A. filiformis filament after incubation with BADA for 15 minutes.
description: Nikon Eclipse NI-U microscope equipped with a MFCool camera (Jenoptik).
DOI: 10.6075/j0125sj1
title: CIL: 54752, Homo sapiens, SBAD2 human iPSC line. In Cell Image Library

description: Epifluorescent imaging
description: Imaging mode: fluorescence microscopy
Visualization methods: epifluorescent imaging
description: TRA1-81 staining
DOI: 10.6075/j0pc327j
title: CIL: 54621, Mus musculus, oocyte. In Cell Image Library

description: FIG.2A Changes in ER cluster morphology require gamete fusion.
description: Oocytes fixed with 2% paraformaldehyde and 1% picric acid. Immunolabelled with anti-Calreticulin (green), Alexafluor 568-phalloidin (red), and Hoechst 33342 (blue).
description: Imaging mode: Live cell in culture medium
Visualization methods: Laser Scan Confocal; PMT
DOI: 10.6075/j0xg9qth
title: CIL: 54457, Homo sapiens. In Cell Image Library

description: 5 um sections of FFPE prefrontal cortex tissue from post-mortem, human Alzheimer's disease donor labeled for hematoxylin and eosin.
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: Imaging mode: bright-field microscopy
Visualization methods: hematoxylin and eosin
DOI: 10.6075/j0q24005
title: CIL: 54500, Homo sapiens. In Cell Image Library

description: 5 um sections of FFPE prefrontal cortex tissue from post-mortem, human Alzheimer's disease donor labeled by Bielschowsky's silver stain.
description: Imaging mode: bright-field microscopy
Visualization methods: silver nitrate and ammonium hydroxide
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.
DOI: 10.6075/j0qf8srv
title: CIL: 54800, Homo sapiens, SBAD2 human iPSC line. In Cell Image Library

description: Nkx6.1
description: Imaging mode: confocal laser scanning microscopy
Visualization methods: confocal fluorescence imaging
description: Confocal fluorescent imaging
DOI: 10.6075/j0kh0n33
title: CIL: 54492, Homo sapiens. In Cell Image Library

description: Imaging mode: bright-field microscopy
Visualization methods: hematoxylin and eosin
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 Alzheimer's disease donor labeled for hematoxylin and eosin.
DOI: 10.6075/j0z89c8f
title: CIL: 54738, 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.
DOI: 10.6075/j0m61k49
title: CIL: 54702, Bacteria E coli, MC1061. In Cell Image Library

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)
description: mPAmCherry post-activation with TIR-STD site.
DOI: 10.6075/j0b56jks
title: CIL: 54617, Phakopsora Pachyrhizi. In Cell Image Library

description: Imaging mode: time lapse microscopy
description: The sequenced reference P. pachyrhizi strain K8108 is a single urediniosoral isolate from P. pachyrhizi-infected soybean leaves collected in 2015 in Uruguay (Colonia region). Genome sequence of this isolate is available at 
https://mycocosm.jgi.doe.gov/PhapaK8108/PhapaK8108.home.html.
description: Processed time-lapse images, with some binarized single-fungus ROIs.
DOI: 10.6075/j02n5244
title: CIL: 54619, Mus musculus, oocyte. In Cell Image Library

description: Oocytes fixed with 2% paraformaldehyde and 1% picric acid. Immunolabelled with anti-Calreticulin (green), Alexafluor 568-phalloidin (red), and Hoechst 33342 (blue).
description: Imaging mode: whole mount confocal image
Visualization methods: Laser Scan Confocal; PMT
description: Fig. 1A, 1A', 1A'' ER clusters are positioned under f-actin fenestrae in fixed and live oocytes.
DOI: 10.6075/j0g73dkx
title: CIL: 54735, Homo sapiens, SBAD2 human iPSC line. In Cell Image Library

description: iRFP720 expressing cells stained with viability indicator dye fluorescein diacetate (merged image).
description: Live cell fluorescent imaging.
description: Imaging mode: confocal laser scanning microscopy
Visualization methods: confocal fluorescence imaging
DOI: 10.6075/j03778hg
title: CIL: 54498, Homo sapiens. In Cell Image Library

description: 5 um sections of FFPE prefrontal cortex tissue from post-mortem, human Alzheimer's disease donor labeled for amyloid-beta (4G8).
description: Imaging mode: bright-field microscopy
Visualization methods: 4G8 IHC using HRP/DAB
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.
DOI: 10.6075/j0jw8dsp
title: CIL: 54773, Homo sapiens, SBAD2 human iPSC line. In Cell Image Library

description: TUBB3 staining
description: Epifluorescent imaging
description: Imaging mode: fluorescence microscopy
Visualization methods: epifluorescent imaging
DOI: 10.6075/j0d21xgp
title: CIL: 54820, Alysiella filiformis, bacteria. In Cell Image Library

description: A. filiformis filament after incubation with TADA for 15 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/j0gx4b6f
title: CIL: 54439, Homo sapiens. In Cell Image Library

description: Imaging mode: bright-field microscopy
Visualization methods: AT8 IHC using HRP/DAB
description: 5 um sections of FFPE prefrontal cortex tissue from post-mortem, human non-symptomatic donor labeled for phosphorylated tau (AT8).
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.
DOI: 10.6075/j0gh9hq0
title: CIL: 54495, Homo sapiens. In Cell Image Library

description: Imaging mode: bright-field microscopy
Visualization methods: silver nitrate and ammonium hydroxide
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 Alzheimer's disease donor labeled by Bielschowsky's silver stain.
DOI: 10.6075/j09p31hd
title: CIL: 54713, 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: Live cell bacterial imaging, expressing fluroescent protein in the cytoplasm.
description: mNeonGreen with TIR-STD site.
DOI: 10.6075/j0jh3m1m
title: CIL: 54656, 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 control D. melanogaster in the third instar larval stage, 56uM 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.
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/j0tt4qsp
title: CIL: 54676, 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 D. melanogaster in the third instar larval stage after αSNAP KD, 80uM 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/j0p26xwf
title: CIL: 54598, Mus musculus, Fetal Liver Macrophage. In Cell Image Library

description: Imaging mode: Lattice Light Sheet Microscope
Visualization methods: ChimeraX
description: Lipopolysaccharide (LPS) Stimulation
description: Processed data
DOI: 10.6075/j06w99xh
title: CIL: 54704, Bacteria E coli, MC1061. In Cell Image Library

description: Live cell bacterial imaging, expressing fluroescent protein in the cytoplasm.
description: mPAmCherry pre-activation with TIR-STD site.
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/j061103c
title: CIL: 54594, Mus musculus, Fetal Liver Macrophage. In Cell Image Library

description: Constitutive macropinocytosis
description: Imaging mode: Lattice Light Sheet Microscope
Visualization methods: ChimeraX
description: Processed data
DOI: 10.6075/j0bc3zdf
title: CIL: 54764, Homo sapiens, SBAD2 human iPSC line. In Cell Image Library

description: TRA1-81 staining
description: Imaging mode: fluorescence microscopy
Visualization methods: epifluorescent imaging
description: Epifluorescent imaging
DOI: 10.6075/j02b8xq4
title: CIL: 54472, Homo sapiens. In Cell Image Library

description: Imaging mode: bright-field microscopy
Visualization methods: hematoxylin and eosin
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 Alzheimer's disease donor labeled for hematoxylin and eosin.
DOI: 10.6075/j0s182cq
title: CIL: 54662, 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: Confocal image of the CNS of a D. melanogaster in the third instar larval stage after Spz3 KD, 26uM 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: Imaging mode: fluorescence microscopy
Visualization methods: Spinning Disk Confocal Imaging
DOI: 10.6075/j0cv4hf1
title: CIL: 54470, Homo sapiens. In Cell Image Library

description: Imaging mode: bright-field microscopy
Visualization methods: silver nitrate and ammonium hydroxide
description: 5 um sections of FFPE prefrontal cortex tissue from post-mortem, human Alzheimer's disease donor labeled by Bielschowsky's silver stain.
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.
DOI: 10.6075/j0r78f20
title: CIL: 54637, Mus musculus, oocyte. In Cell Image Library

description: Oocytes fixed with 2% paraformaldehyde and 1% picric acid. Immunolabelled with anti-Calreticulin (green), Alexafluor 568-phalloidin (red), and Hoechst 33342 (blue).
description: Imaging mode: whole mount confocal image
Visualization methods: Laser Scan Confocal; PMT
description: FIG. 4C Changes in cortical ER clusters at the site of sperm binding and incorporation.
DOI: 10.6075/j01n80sn
title: CIL: 54449, Homo sapiens. In Cell Image Library

description: 5 um sections of FFPE prefrontal cortex tissue from post-mortem, human non-symptomatic donor labeled for phosphorylated tau (AT8).
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: Imaging mode: bright-field microscopy
Visualization methods: AT8 IHC using HRP/DAB
DOI: 10.6075/j04m94cw
title: CIL: 54602, Mus musculus, Bone Marrow Derived Macrophage. In Cell Image Library

description: Membrane Structure Comparison
description: Imaging mode: Lattice Light Sheet Microscope
Visualization methods: ChimeraX
description: Processed data
DOI: 10.6075/j0jq10v7
title: CIL: 54624, Mus musculus, oocyte. In Cell Image Library

description: FIG.2D Changes in ER cluster morphology require gamete fusion.
description: Imaging mode: whole mount confocal image
Visualization methods: Laser Scan Confocal; PMT
description: Oocytes fixed with 2% paraformaldehyde and 1% picric acid. Immunolabelled with anti-Calreticulin (green), Alexafluor 568-phalloidin (red), and Hoechst 33342 (blue).
DOI: 10.6075/j0n879n0
title: CIL: 54661, Drosophila melanogaster, astrocytes (red). In Cell Image Library

description: Confocal image of the CNS of a D. melanogaster in the third instar larval stage after Spz3 KD, 72uM 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: 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)
DOI: 10.6075/j0668d1t
title: CIL: 54649, 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 control D. melanogaster in the third instar larval stage, 76uM 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.
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/j0k937cs
title: CIL: 54679, 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 αSNAP KD, 14uM 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.
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/j05h7g4d
title: CIL: 54812. In Cell Image Library

description: This image displays degenerating neuron with the cristae junction.
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: Item type: recorded image
Imaging mode: Electronic tomography