cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6075/j04f1prp
title: CIL:8454, Rattus, multipolar neuron. In Cell Image Library

description: Development of axon and dendritic arbors in cultured hippocampal neurons after 2 days in vitro. At this timepoint, many, but not all cells are polarized, evidenced by the absence of a long, slender axon. MAP2 staining (red) is becoming segregated to the dendrites, while microtubule staining (green) reveals both the axons and dendrites in the field of view. Nonneuronal cells (e.g. glia) are infrequent, but may also be present in this preparation. 

Detailed methods: Embryonic rat hippocampal neurons were prepared as previously described (see Kaech and Banker, 2006, Nat Protoc). Cells were prepared for fluorescent staining as previously described (Withers and Banker, 1998, in Culturing Nerve Cells, MIT Press). Briefly, cells were fixed (4% formaldehyde, 4% sucrose in phosphate buffered saline, pH 7.4), permeabilized with 0.25% Triton and immunostained for tubulin (monoclonal DM1A, from Sigma with Alexa 488 conjugated secondary, excitation, 494, emission, 519 [Invitrogen, Molecular Probes]) and MAP2 (polyclonal Ab266, from S. Halpain with d549 conjugated secondary, excitation, 555, emission, 568, Jackson Immunoresearch). Images were acquired with a Leica DMRA microscope with a 40X (HCX PL APO, NA 1.25) lens, Photometrics CoolSnap ES CCD camera and MetaMorph software. This merged image was generated with the MetaMorph color combine function.
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 epitope
Visualization methods: primary antibody plus labeled secondary antibody
Processing history: unprocessed raw data
Data qualification: Raw;spatialmeasurements
DOI: 10.6075/j0bk1bbd
title: CIL:8272, Rattus, multipolar neuron. 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 epitope
Visualization methods: primary antibody plus labeled secondary antibody
Processing history: unprocessed raw data
Data qualification: Raw;spatialmeasurements
description: Development of axon and dendritic arbors in cultured hippocampal neurons after 3 days in vitro. At this timepoint, most, but not all cells are polarized, evidenced by the absence of a long, slender axon. MAP2 staining (red) is becoming well segregated to the dendrites, while microtubule staining (green) reveals both the axons and dendrites in the field of view. Nonneuronal cells (e.g. glia) are infrequent, but may also be present in this preparation. 

Detailed methods: Embryonic rat hippocampal neurons were prepared as previously described (see Kaech and Banker, 2006, Nat Protoc). Cells were prepared for fluorescent staining as previously described (Withers and Banker, 1998, in Culturing Nerve Cells, MIT Press). Briefly, cells were fixed (4% formaldehyde, 4% sucrose in phosphate buffered saline, pH 7.4), permeabilized with 0.25% Triton and immunostained for tubulin (monoclonal DM1A, from Sigma with Alexa 488 conjugated secondary, excitation, 494, emission, 519 [Invitrogen, Molecular Probes]) and MAP2 (polyclonal Ab266, from S. Halpain with d549 conjugated secondary, excitation, 555, emission, 568, Jackson Immunoresearch). Images were acquired with a Leica DMRA microscope with a 40X (HCX PL APO, NA 1.25) lens, Photometrics CoolSnap ES CCD camera and MetaMorph software. This merged image was generated with the MetaMorph color combine function.
DOI: 10.6075/j0k64h3v
title: CIL:8271, Rattus, multipolar neuron. In Cell Image Library

description: Development of axon and dendritic arbors in cultured hippocampal neurons after 2 days in vitro. At this timepoint, many, but not all cells are polarized, evidenced by the absence of a long, slender axon. MAP2 staining (red) is becoming segregated to the dendrites, while microtubule staining (green) reveals both the axons and dendrites in the field of view. Nonneuronal cells (e.g. glia) are infrequent, but may also be present in this preparation. 

Detailed methods: Embryonic rat hippocampal neurons were prepared as previously described (see Kaech and Banker, 2006, Nat Protoc). Cells were prepared for fluorescent staining as previously described (Withers and Banker, 1998, in Culturing Nerve Cells, MIT Press). Briefly, cells were fixed (4% formaldehyde, 4% sucrose in phosphate buffered saline, pH 7.4), permeabilized with 0.25% Triton and immunostained for tubulin (monoclonal DM1A, from Sigma with Alexa 488 conjugated secondary, excitation, 494, emission, 519 [Invitrogen, Molecular Probes]) and MAP2 (polyclonal Ab266, from S. Halpain with d549 conjugated secondary, excitation, 555, emission, 568, Jackson Immunoresearch). Images were acquired with a Leica DMRA microscope with a 40X (HCX PL APO, NA 1.25) lens, Photometrics CoolSnap ES CCD camera and MetaMorph software. This merged image was generated with the MetaMorph color combine function.
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 epitope
Visualization methods: primary antibody plus labeled secondary antibody
Processing history: unprocessed raw data
Data qualification: Raw;spatialmeasurements
DOI: 10.6075/j0mp529p
title: CIL:8270, Rattus, multipolar neuron. 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 epitope
Visualization methods: primary antibody plus labeled secondary antibody
Processing history: unprocessed raw data
Data qualification: Raw;spatialmeasurements
description: Development of axon and dendritic arbors in cultured hippocampal neurons after 3 days in vitro. At this timepoint, most, but not all cells are polarized, evidenced by the absence of a long, slender axon. MAP2 staining (red) is becoming well segregated to the dendrites, while microtubule staining (green) reveals both the axons and dendrites in the field of view. Nonneuronal cells (e.g. glia) are infrequent, but may also be present in this preparation. 

Detailed methods: Embryonic rat hippocampal neurons were prepared as previously described (see Kaech and Banker, 2006, Nat Protoc). Cells were prepared for fluorescent staining as previously described (Withers and Banker, 1998, in Culturing Nerve Cells, MIT Press). Briefly, cells were fixed (4% formaldehyde, 4% sucrose in phosphate buffered saline, pH 7.4), permeabilized with 0.25% Triton and immunostained for tubulin (monoclonal DM1A, from Sigma with Alexa 488 conjugated secondary, excitation, 494, emission, 519 [Invitrogen, Molecular Probes]) and MAP2 (polyclonal Ab266, from S. Halpain with d549 conjugated secondary, excitation, 555, emission, 568, Jackson Immunoresearch). Images were acquired with a Leica DMRA microscope with a 40X (HCX PL APO, NA 1.25) lens, Photometrics CoolSnap ES CCD camera and MetaMorph software. This merged image was generated with the MetaMorph color combine function.
DOI: 10.6075/j0sf2v5d
title: CIL:8269, Rattus, multipolar neuron. In Cell Image Library

description: Development of axon and dendritic arbors in cultured hippocampal neurons after 3 days in vitro. At this timepoint, most, but not all cells are polarized, evidenced by the absence of a long, slender axon. MAP2 staining (red) is becoming well segregated to the dendrites, while microtubule staining (green) reveals both the axons and dendrites in the field of view. Nonneuronal cells (e.g. glia) are infrequent, but may also be present in this preparation. 

Detailed methods: Embryonic rat hippocampal neurons were prepared as previously described (see Kaech and Banker, 2006, Nat Protoc). Cells were prepared for fluorescent staining as previously described (Withers and Banker, 1998, in Culturing Nerve Cells, MIT Press). Briefly, cells were fixed (4% formaldehyde, 4% sucrose in phosphate buffered saline, pH 7.4), permeabilized with 0.25% Triton and immunostained for tubulin (monoclonal DM1A, from Sigma with Alexa 488 conjugated secondary, excitation, 494, emission, 519 [Invitrogen, Molecular Probes]) and MAP2 (polyclonal Ab266, from S. Halpain with d549 conjugated secondary, excitation, 555, emission, 568, Jackson Immunoresearch). Images were acquired with a Leica DMRA microscope with a 40X (HCX PL APO, NA 1.25) lens, Photometrics CoolSnap ES CCD camera and MetaMorph software. This merged image was generated with the MetaMorph color combine function.
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 epitope
Visualization methods: primary antibody plus labeled secondary antibody
Processing history: unprocessed raw data
Data qualification: Raw;spatialmeasurements
DOI: 10.6075/j0q52nvh
title: CIL:727, Chlorocebus sabaeus. In Cell Image Library

description: Preparation: living tissue
Relation to intact cell: living tissue
Item type: recorded image
Imaging mode: single-spot confocal microscopy
Source of contrast: UV/visible/IR photons
Visualization methods: EGFP
description: COS 7 cell expressing Organelle LightsTM PM-GFP (Invitrogen)consisting of the myristoylation/palmitoylation sequence from Lck
tyrosine kinase. Images were collected with a 63X 1.4 NA Plan-Apochromat oil objective on a Zeiss LSM510 META (Carl Zeiss, Thornwood, NY) using 488 nm excitation, HFT 488 dichroic, and LP505 emission filter. Image size is 1024 x 1024, pixel size is 0.1 µm x 0.1 µm and pixel time was set to 1.6 ¬µsec. Detector pinhole was set to collect 29 ~0.5 µm slices at 0.5 µm intervals
DOI: 10.6075/j0z60nc0
title: CIL:734, Chlorocebus sabaeus. In Cell Image Library

description: COS 7 cell expressing Organelle LightsTM Golgi-GFP (Invitrogen)consisting of the human Golgi-resident enzyme N-
acetylgalactosaminyltransferase 2. Images were collected with a 63X 1.4 NA Plan-Apochromat oil objective on a Zeiss LSM510 META (Carl
Zeiss, Thornwood, NY) using 488 nm excitation, HFT 488 dichroic, and LP505 emission filter. Image size is 512 x 512, pixel size is 0.1 µm
x 0.1 µm and pixel time was set to 1.6 ¬µsec. Detector pinhole was set to collect 18 ~0.5 µm slices at 0.5 µm intervals
description: Preparation: living tissue
Relation to intact cell: living tissue
Item type: recorded image
Imaging mode: single-spot confocal microscopy
Parameter imaged: fluorescence emission
Source of contrast: EGFP
Visualization methods: UV/visible/IR photons
DOI: 10.6075/j0th8kqj
title: CIL:7338, Opercularia [NCBITaxon:168247], Opercularia coarctata, cell by organism, eukaryotic cell, Eukaryotic Protist, ciliated Protist. In Cell Image Library

description: TEM taken on 6/11/69 by R. Allen with Philips 300 operating at 60kV. Neg. 23,200X. This image is suitable for quantitative analysis. Standard glutaraldehyde fixation followed by osmium tetroxide, dehydrated in alcohol and embedded in an epoxy resin. Microtome sections prepared at approximately 75nm thickness.

Additional information available at (http://www5.pbrc.hawaii.edu/allen/).
description: High resolution transmission electron micrograph of a portion of the macronucleus of Opercularia coarctata containing irregularly shaped heterochromatin bodies and elliptical nucleoli. Ribosome-like precursors can be seen at the margins of the nucleoli.
description: Preparation: glutaraldehyde fixed tissue; osmium tetroxide fixed tissue; tissue in epoxy resin embedment; microtome-sectioned tissue
Relation to intact cell: microtome-sectioned tissue
Item type: transmission electron microscopy (TEM); illumination by electrons
Imaging mode: detection of electrons; film
Parameter imaged: electron density
Source of contrast: stain with broad specificity
Visualization methods: stain with broad specificity; osmium tetroxide; uranyl salt; lead salt
Processing history: recorded image; film; unprocessed raw data
Data qualification: Raw;spatialmeasurements;intensitiesquantitation
DOI: 10.24400/170160/sagsa_gfq_ewh_svd_10days_rl0005
title: Equivalent Water Height Singular Value Decomposition 10-days
DOI: 10.6075/j0445kj5
title: CIL:7330, Mus musculus, blood vessel endothelial cell, primary cell line cell. In Cell Image Library

description: Primary aortic endothelial cells from transgenic mouse embedded in 3D collagen gels. Cell was fixed with 3% paraformaldehyde and stained with mouse antibody to phosphomyosin regulatory light chain (red), followed by anti-mouse Alexa 561 goat antibody and Alexa 488 phalloidin to stain for F-actin (green). 
Size and scale: 0.0789 micron/pixel, 1352x1040 pixels 
Images collected with a spinning disk confocal on a Nikon TE1000 with a 60X 1.2NA water objective using 300 ms exposure for the red channel and 200 ms for the green channel.
See Fischer et al for details regarding preparation. http://www.ncbi.nlm.nih.gov/pubmed/19185493
description: Preparation: formaldehyde fixed tissue
Relation to intact cell: dispersed cells in vitro; cells in 3D matrix
Item type: recorded image
Imaging mode: spinning disk confocal microscopy
Parameter imaged: fluorescence emission
Source of contrast: differences in adsorption or binding of stain
Visualization methods: Alexa Fluor 488; Alexa Fluor 568; primary antibody plus labeled secondary antibody; label conjugated to probe
Processing history: formaldehyde fixed tissue
DOI: 10.6075/j0kd1x7j
title: CIL:733, Chlorocebus sabaeus. In Cell Image Library

description: COS 7 cell expressing Organelle LightsTM Golgi-GFP (Invitrogen)consisting of the human Golgi-resident enzyme N-acetylgalactosaminyltransferase 2. Images were collected with a 63X1.4 NA Plan-Apochromat oil objective on a Zeiss LSM510 META (Carl
Zeiss, Thornwood, NY) using 488 nm excitation, HFT 488 dichroic, and LP505 emission filter. Image size is 512 x 512, pixel size is 0.1 µm
x 0.1 µm and pixel time was set to 1.6 ¬µsec. Detector pinhole was setto collect 26 ~0.5 µm slices at 0.5 µm intervals.
description: Preparation: living tissue
Relation to intact cell: living tissue
Item type: recorded image
Imaging mode: single-spot confocal microscopy
Parameter imaged: fluorescence emission
Source of contrast: EGFP
Visualization methods: UV/visible/IR photons
DOI: 10.6075/j08g8jzz
title: CIL:730, Chlorocebus sabaeus. In Cell Image Library

description: COS 7 cell expressing Organelle LightsTM Peroxi-GFP (Invitrogen)consisting of the peroxisomal C-terminal targeting sequence. Imageswere collected with a 63X 1.4 NA Plan-Apochromat oil objective on a
Zeiss LSM510 META (Carl Zeiss, Thornwood, NY) using 488 nm excitation, HFT 488 dichroic, and LP505 emission filter. Image size is 512 x 512,
pixel size is 0.14 µm x 0.14 µm and pixel time was set to 1.6 ¬µsec. Detector pinhole was set to collect 300 ~1 µm slices at ~1 sec intervals
description: Preparation: living tissue
Relation to intact cell: living tissue
Item type: recorded image
Imaging mode: single-spot confocal microscopy
Parameter imaged: fluorescence emission
Source of contrast: EGFP
Visualization methods: UV/visible/IR photons
DOI: 10.6075/j0t43sd9
title: CIL:729, Chlorocebus sabaeus. In Cell Image Library

description: Preparation: living tissue
Relation to intact cell: living tissue
Item type: recorded image
Imaging mode: single-spot confocal microscopy
Parameter imaged: fluorescence emission
Source of contrast: EGFP
Visualization methods: UV/visible/IR photons
description: COS 7 cell expressing Organelle LightsTM PM-GFP (Invitrogen)consisting of the myristoylation/palmitoylation sequence from Lck
tyrosine kinase. Images were collected with a 63X 1.4 NA Plan-Apochromat oil objective on a Zeiss LSM510 META (Carl Zeiss,Thornwood, NY) using 488 nm excitation, HFT 488 dichroic, and LP505 emission filter. Image size is 1024 x 1024, pixel size is 0.14 µm x 0.14 µm and pixel time was set to 1.6 ¬µsec. Detector pinhole was set to collect 100 ~0.5 µm slices at ~16 sec intervals.
DOI: 10.6075/j0ht2nnh
title: CIL:728, Chlorocebus sabaeus. In Cell Image Library

description: COS 7 cell expressing Organelle LightsTM PM-GFP (Invitrogen)consisting of the myristoylation/palmitoylation sequence from Lck
tyrosine kinase. Images were collected with a 63X 1.4 NA Plan-Apochromat oil objective on a Zeiss LSM510 META (Carl Zeiss,Thornwood, NY) using 488 nm excitation, HFT 488 dichroic, and LP505 emission filter. Image size is 1024 x 1024, pixel size is 0.1 µm x 0.1 µm and pixel time was set to 1.6 ¬µsec. Detector pinhole was set to collect 29 ~0.5 µm slices at 0.5 µm intervals
description: Preparation: living tissue
Relation to intact cell: living tissue
Item type: recorded image
Imaging mode: single-spot confocal microscopy
Parameter imaged: fluorescence emission
Source of contrast: EGFP
Visualization methods: UV/visible/IR photons
DOI: 10.6075/j0g73cq9
title: CIL:7337, Opercularia [NCBITaxon:168247], Opercularia coarctata, cell by organism, eukaryotic cell, Eukaryotic Protista, ciliated Protista. In Cell Image Library

description: A high resolution image of the micronucleus and macronucleus of Opercularia coarctata. The nuclear envelope has numerous pores, at least as many per unit length as in the macronucleus. Some areas of the outer membrane of the micronucleus envelope bare ribosomes. TEM taken on 6/11/69 by R. Allen with Philips 300 operating at 60kV. Neg. 23,200X. The raw film was scanned with an Epson Perfection V750 Pro. this image is suitable for quantitative analysis.

Standard glutaraldehyde fixation followed by osmium tetroxide, dehydrated in alcohol and embedded in an epoxy resin. Microtome sections prepared at approximately 75nm thickness.

Additional information available at (http://www5.pbrc.hawaii.edu/allen/).
description: Preparation: glutaraldehyde fixed tissue; osmium tetroxide fixed tissue; tissue in epoxy resin embedment; microtome-sectioned tissue
Relation to intact cell: microtome-sectioned tissue
Item type: transmission electron microscopy (TEM); illumination by electrons
Imaging mode: detection of electrons; film
Parameter imaged: electron density
Source of contrast: stain with broad specificity
Visualization methods: stain with broad specificity; osmium tetroxide; uranyl salt; lead salt
Processing history: recorded image; film; unprocessed raw data
Data qualification: Raw;spatialmeasurements;intensitiesquantitation
DOI: 10.6075/j0zc81w1
title: CIL:7336, Opercularia [NCBITaxon:168247], Opercularia coarctata, cell by organism, eukaryotic cell, Eukaryotic Protist, ciliated Protist. In Cell Image Library

description: A high resolution image of the pellicle of Opercularia coarctata. Indentations of the plasma membrane penetrate the alveolar membranes end as coated pits. These pits are also known as pellicular pores are homologous to parasomal sacs of other ciliates. The surface ridges contain an electron opaque rod in the cytosol of unknown composition, seen here in cross section. TEM taken on 6/11/69 by R. Allen with Philips 300 operating at 60kV. Neg. 30,000X. The raw film was scanned with a Epson Perfection V750 Pro. This image is best used for quantitative analysis.

Standard glutaraldehyde fixation followed by osmium tetroxide, dehydrated in alcohol and embedded in an epoxy resin. Microtome sections prepared at approximately 75nm thickness.

Additional information available at (http://www5.pbrc.hawaii.edu/allen/).
description: Preparation: glutaraldehyde fixed tissue; osmium tetroxide fixed tissue; tissue in epoxy resin embedment; microtome-sectioned tissue
Relation to intact cell: microtome-sectioned tissue
Item type: transmission electron microscopy (TEM); illumination by electrons
Imaging mode: detection of electrons; film
Parameter imaged: electron density
Source of contrast: stain with broad specificity
Visualization methods: stain with broad specificity; osmium tetroxide; uranyl salt; lead salt
Processing history: recorded image; film; unprocessed raw data
Data qualification: Raw;spatialmeasurements;intensitiesquantitation
DOI: 10.6075/j0pr7tzc
title: CIL:7340, Opercularia [NCBITaxon:168247], Opercularia coarctata, cell by organism, eukaryotic cell, Eukaryotic Protist, Ciliated Protist. In Cell Image Library

description: A high resolution overview of Opercularia coarctata showing that cytostome divides the peristome from the cytopharynx. The cytopharynx starts where the alveoli end in the oral region. TEM taken on 6/13/69 by R. Allen with Philips 300 operating at 60kV. Neg. 5,000X. The raw film was scanned with an Epson Perfection V750 Pro. This image is suitable for quantitative analysis.

Standard glutaraldehyde fixation followed by osmium tetroxide, dehydrated in alcohol and embedded in an epoxy resin. Microtome sections prepared at approximately 75nm thickness.

Additional information available at (http://www5.pbrc.hawaii.edu/allen/).
description: Preparation: glutaraldehyde fixed tissue; osmium tetroxide fixed tissue; tissue in epoxy resin embedment; microtome-sectioned tissue
Relation to intact cell: microtome-sectioned tissue
Item type: transmission electron microscopy (TEM); illumination by electrons
Imaging mode: detection of electrons; film
Parameter imaged: electron density
Source of contrast: stain with broad specificity
Visualization methods: stain with broad specificity; osmium tetroxide; uranyl salt; lead salt
Processing history: recorded image; film; unprocessed raw data
Data qualification: Raw;spatialmeasurements;intensitiesquantitation
DOI: 10.6075/j08w3cb2
title: CIL:7335, Opercularia [NCBITaxon:168247], Opercularia coarctata, cell by organism, eukaryotic cell, Eukaryotic Protist, Ciliated Protist. In Cell Image Library

description: High resolution micrograph showing an overview of the peristome of Opercularia coarctata. The corrugated wall, the equivalent to the ribbed wall of Paramecium, contains tubular projections of alveoli and cross sections of two ribbons of microtubules, one of 2 microtubules and one of 4 microtubules. The ends of these ribbons, at their origins, are covered by a myoneme which, in turn, is accompanied by a layer of ER. The microtubules will extend along the wall of the peristome and some will pass beyond the cytostome to form the lamellae of the cytopharynx. Vesicles bind to the lamellae and provide membrane for the nascent food vacuole. Oral polykinetids, myoneme, endoplasmic reticulum, contractile vacuole, microtubular ribbons, pellicular pores, and Golgi complex can be seen. TEM taken on 6/10/69 by R. Allen with Philips 300 operating at 60kV. Neg. 14,800X. The raw film was scanned with an Epson Perfection V750 Pro. This image is suitable for quantitative analysis

Standard glutaraldehyde fixation followed by osmium tetroxide, dehydrated in alcohol and embedded in an epoxy resin. Microtome sections prepared at approximately 75nm thickness.

Additional information available at (http://www5.pbrc.hawaii.edu/allen/).
description: Preparation: glutaraldehyde fixed tissue; osmium tetroxide fixed tissue; tissue in epoxy resin embedment; microtome-sectioned tissue
Relation to intact cell: microtome-sectioned tissue
Item type: transmission electron microscopy (TEM); illumination by electrons
Imaging mode: detection of electrons; film
Parameter imaged: electron density
Source of contrast: stain with broad specificity
Visualization methods: stain with broad specificity; osmium tetroxide; uranyl salt; lead salt
Processing history: recorded image; film; unprocessed raw data
Data qualification: Raw;spatialmeasurements;intensitiesquantitation