cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.60712/si-id372106.1
title: StrainInfo SI-ID 372106.1

description: StrainInfo dataset 372106 about a strain of Lysinibacillus sphaericus. StrainInfo is a service developed to provide a resolution of microbial strain identifiers by storing culture collection numbers, their relations, and culture-associated data. StrainInfo is part of NFDI4Microbiota consortium.
DOI: 10.60712/si-id372107.1
title: StrainInfo SI-ID 372107.1

description: StrainInfo dataset 372107 about a strain of Lysinibacillus sphaericus. StrainInfo is a service developed to provide a resolution of microbial strain identifiers by storing culture collection numbers, their relations, and culture-associated data. StrainInfo is part of NFDI4Microbiota consortium.
DOI: 10.60712/si-id371979.1
title: StrainInfo SI-ID 371979.1

description: StrainInfo dataset 371979 about a strain of Actinomyces graevenitzii. StrainInfo is a service developed to provide a resolution of microbial strain identifiers by storing culture collection numbers, their relations, and culture-associated data. StrainInfo is part of NFDI4Microbiota consortium.
DOI: 10.60712/si-id372108.1
title: StrainInfo SI-ID 372108.1

description: StrainInfo dataset 372108 about a strain of Lysinibacillus sphaericus. StrainInfo is a service developed to provide a resolution of microbial strain identifiers by storing culture collection numbers, their relations, and culture-associated data. StrainInfo is part of NFDI4Microbiota consortium.
DOI: 10.60712/si-id371980.1
title: StrainInfo SI-ID 371980.1

description: StrainInfo dataset 371980 about a strain of Schaalia odontolytica. StrainInfo is a service developed to provide a resolution of microbial strain identifiers by storing culture collection numbers, their relations, and culture-associated data. StrainInfo is part of NFDI4Microbiota consortium.
DOI: 10.60712/si-id371981.1
title: StrainInfo SI-ID 371981.1

description: StrainInfo dataset 371981 about a strain of Brevibacillus brevis. StrainInfo is a service developed to provide a resolution of microbial strain identifiers by storing culture collection numbers, their relations, and culture-associated data. StrainInfo is part of NFDI4Microbiota consortium.
DOI: 10.15468/dl.yteqtl
title: Occurrence Download

description: A dataset containing 227899 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Phalaris arundinacea L.",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 227899 records from 398 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0038177-160910150852091/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6075/j0dv1hnw
title: CIL:50630, Homo sapiens, monocyte. In Cell Image Library

description: Imaging mode: microscopy
Visualization methods: x100
description: Two monocyte-type cells contained erythrocytes.
description: Cerebrospinal fluid, cytocentrifugation, May-Grunwald-Giemsa stain.
DOI: 10.6075/j0zg6r3p
title: CIL:50608, Homo sapiens, monocyte. In Cell Image Library

description: Cerebrospinal fluid, cytocentrifugation, May-Grunwald-Giemsa stain.
description: The monocyte type cell contained one erythrocyte, To note would be the elongated form of the monocyte cytoplasm.
description: Imaging mode: microscopy
Visualization methods: x100
DOI: 10.6075/j0r49pnv
title: CIL:50627, Homo sapiens, monocyte. In Cell Image Library

description: Cerebrospinal fluid, cytocentrifugation, May-Grunwald-Giemsa stain.
description: A monocyte contained several erythrocytes. To note would be that one erythrocyte is not completely surrounded by the cytoplasm of the monocyte.
description: Imaging mode: microscopy
Visualization methods: x100
DOI: 10.6075/j0c24v80
title: CIL:50617, Homo sapiens, monocyte. In Cell Image Library

description: Two of the four monocyte-type cells (almost entirely lytic) contained a rounded cytoplasmic zone resembling to lytic, aglutinated erythrocytes (left upper corner and lower half of the photo).
description: Imaging mode: microscopy
Visualization methods: x100
description: Cerebrospinal fluid, cytocentrifugation, May-Grunwald-Giemsa stain.
DOI: 10.6075/j0833qtj
title: CIL:50618, Homo sapiens, monocyte. In Cell Image Library

description: Imaging mode: microscopy
Visualization methods: x100
description: One elongated monocyte-type cell contained one erythrocyte, compressing the nucleus.
description: Cerebrospinal fluid, cytocentrifugation, May-Grunwald-Giemsa stain.
DOI: 10.6075/j0v123jq
title: CIL:50619, Homo sapiens, monocyte. In Cell Image Library

description: Five deformed, monocyte-type cells containing 1 or several erythrocytes. The nuclei of the monocytes were deformed/compressed by erythrocytes. To note would be the aspects of "adherent" monocytes. For two of the erythrocytes, the precise localisation, whether intra-monocyte or between 2 monocytes is difficult to precise.
description: Imaging mode: microscopy
Visualization methods: x100
description: Cerebrospinal fluid, cytocentrifugation, May-Grunwald-Giemsa stain.
DOI: 10.6075/j0sq8z81
title: CIL:50616, Homo sapiens, monocyte. In Cell Image Library

description: Imaging mode: microscopy
Visualization methods: x100
description: Cerebrospinal fluid, cytocentrifugation, May-Grunwald-Giemsa stain.
description: One elongated monocyte-type cell contained one erythrocyte, compressing the nucleus.
DOI: 10.6075/j0wd3zf6
title: CIL:50614, Homo sapiens, monocyte. In Cell Image Library

description: A monocyte contained a rounded zone resembling to aglutinated erythrocytes (upper half of the photo). Three partially aglutinated erythrocytes were at contact of a lytic nuclear-type material. The cytoplasm was almost not visible.
description: Imaging mode: microscopy
Visualization methods: x100
description: Cerebrospinal fluid, cytocentrifugation, May-Grunwald-Giemsa stain.
DOI: 10.6075/j0kd1wqd
title: CIL:50613, Homo sapiens, monocyte. In Cell Image Library

description: Imaging mode: microscopy
Visualization methods: x100
description: One elongated monocyte-type cell contained one erythrocyte, compressing the nucleus. A focally "adherent" similar cell, without erythrophagocytosis was detected. More than 2 erythrocytes were "adherent" to another, round monocyte.
description: Cerebrospinal fluid, cytocentrifugation, May-Grunwald-Giemsa stain.
DOI: 10.6075/j04x56nw
title: CIL:50611, Homo sapiens, monocyte. In Cell Image Library

description: Cerebrospinal fluid, cytocentrifugation, May-Grunwald-Giemsa stain.
description: One elongated monocyte-type cell contained one erythrocyte, compressing the nucleus. A focally "adherent" similar cell, without erythrophagocytosis was detected. More than 2 erythrocytes were "adherent" to another, round monocyte.
description: Imaging mode: microscopy
Visualization methods: x100
DOI: 10.6075/j0gm863v
title: CIL:50629, Homo sapiens, monocyte. In Cell Image Library

description: Imaging mode: microscopy
Visualization methods: x100
description: Cerebrospinal fluid, cytocentrifugation, May-Grunwald-Giemsa stain.
description: Lesions of diffcult evaluation, six erythrocytes being situated between 2 monocyte-type cells. The erythorcytes seem to be located in the cytoplasm of the larger monocyte.
DOI: 10.6075/j0rx99wc
title: CIL:50631, Homo sapiens, monocyte. In Cell Image Library

description: Two of the four monocyte-type cells contained erythrocytes.
description: Imaging mode: microscopy
Visualization methods: x100
description: Cerebrospinal fluid, cytocentrifugation, May-Grunwald-Giemsa stain.
DOI: 10.6075/j05b018f
title: CIL:50638, Homo sapiens, monocyte. In Cell Image Library

description: Cerebrospinal fluid, cytocentrifugation, May-Grunwald-Giemsa stain.
description: Two monocyte-type cells showed erythrocytes either at contact or intruding in the monocyte cytoplasm, For one of the cells, the erythrocyte was covered with cytoplams-like material. For the other monocyte, a rectangular crystal could be identifiedat contact to the monocyte nucleus and superposed possibly to the erythrocyte. Other monocyte/polymorphonuclear type cells showing nuclei with aberant shapes, in part lytic, could be observed.
description: Imaging mode: microscopy
Visualization methods: x100
DOI: 10.6075/j0h9943m
title: CIL:50636, Homo sapiens, monocyte. In Cell Image Library

description: Imaging mode: microscopy
Visualization methods: x100
description: Two monocytes with cytoplasmic erythrocytes were detected (upper part and lower right corner of the photo). The two other cells show erythrocytes at contact (one of which also a rectangular crystal). To note would be that for one of them, the erythrocytes are situtated between 2 monocytes, for the other, the erythrocytes are covered by cytoplasmic-appearing material (possibly from the respective monocyte or from another).
description: Cerebrospinal fluid, cytocentrifugation, May-Grunwald-Giemsa stain.
DOI: 10.6075/j0zk5ff3
title: CIL:50633, Homo sapiens, monocyte. In Cell Image Library

description: Cerebrospinal fluid, cytocentrifugation, May-Grunwald-Giemsa stain.
description: Imaging mode: microscopy
Visualization methods: x100
description: Monocyte-type cells of elongated form, fibroblast-like, showing nucleus compression by 2 erythrocytes. The erythrocytes seem rather at contact to the cell or superposed and not intracytoplasmic.
DOI: 10.6075/j0f47mx2
title: CIL:50634, Homo sapiens, monocyte. In Cell Image Library

description: Monocyte-type cells of elongated form, fibroblast-like, showing nucleus compression by 2 erythrocytes. The erythrocytes seem rather at contact to the cell or superposed and not intracytoplasmic. To note would be the presence of another monocyte with a lymphocyte-type cell at contact (lower left corner of the photo).
description: Cerebrospinal fluid, cytocentrifugation, May-Grunwald-Giemsa stain.
description: Imaging mode: microscopy
Visualization methods: x100
DOI: 10.6075/j08w3c5t
title: CIL:50626, Homo sapiens, monocyte. In Cell Image Library

description: Cerebrospinal fluid, cytocentrifugation, May-Grunwald-Giemsa stain.
description: Imaging mode: microscopy
Visualization methods: x100
description: Three monocyte-type cells containing one or more erythrocytes. The monocytes have nuclei of modified shape, as result of the presence of cytoplasmic erythrocytes.
DOI: 10.6075/j0mg7nc9
title: CIL:50625, Homo sapiens, monocyte. In Cell Image Library

description: Cerebrospinal fluid, cytocentrifugation, May-Grunwald-Giemsa stain.
description: Imaging mode: microscopy
Visualization methods: x100
description: A monocyte contained several erythrocytes. To note would be that one erythrocyte is not completely surrounded by the cytoplasm of the monocyte.
DOI: 10.6075/j0s46qs7
title: CIL:50632, Homo sapiens, monocyte. In Cell Image Library

description: Three of four monocytes contained erythrocytes in the cytoplasm. To note would be the presence of erythrocyte-type lytic material at the cytoplasm surface of one of the monocytes. Aglutinated, lytic erythrocytes were also seen at contact to lytic nuclear material.
description: Imaging mode: microscopy
Visualization methods: x100
description: Cerebrospinal fluid, cytocentrifugation, May-Grunwald-Giemsa stain.
DOI: 10.6075/j0np236x
title: CIL:50624, Homo sapiens, monocyte. In Cell Image Library

description: Cerebrospinal fluid, cytocentrifugation, May-Grunwald-Giemsa stain.
description: Imaging mode: microscopy
Visualization methods: x100
description: Monocytes with 2 or more erythrocytes in the cytoplasm.
DOI: 10.6075/j0610xwg
title: CIL:49154, Homo sapiens. In Cell Image Library

description: Plate 24661 - Phenotypic profiling attempts to summarize multiparametric, feature-based analysis of cellular phenotypes of each sample so that similarities between profiles reflect similarities between samples. This image set provides a basis for testing image-based profiling methods wrt. to their ability to distinguish the effects of small molecules. The images are of U2OS cells treated with each of 1600 known bioactive compounds and labeled with six labels that characterize seven organelles (the cell-painting assay). This experiment consists of 375 plates in 384-well format, for a data set comprised of 988,994 fields of view. Each field was imaged in five channels (detection wavelengths), and each channel is stored as a separate, grayscale image file, so there are approximately 5 million image files in 16-bit TIFF format.
description: Gustafsdottir et al. (doi:10.1371/journal.pone.0080999) have developed a multiplex cytological profiling assay that "paints the cell" with as many fluorescent markers as possible without compromising our ability to extract rich, quantitative profiles in high throughput. The assay detects seven major cellular components. In a pilot screen of bioactive compounds, the assay detected a range of cellular phenotypes and it clustered compounds with similar annotated protein targets or chemical structure based on cytological profiles. The results demonstrate that the assay captures subtle patterns in the combination of morphological labels, thereby detecting the effects of chemical compounds even though their targets are not stained directly. This image-based assay provides an unbiased approach to characterize compound- and disease-associated cell states to support future probe discovery. Using the cell-painting assay, the Broad Institute has assembled a reference dataset of profiles for U2OS osteosarcoma cells treated with ~30,000 compounds. The compound collection includes DOS-derived compounds (20,000), as well as chemically diverse MLI compounds with biologically diverse performance identified through analysis of PubChem (10,000), and known bioactive compounds to serve as landmarks (2,500). The DOS compounds consist of structurally diverse and stereochemically rich compounds with structures distinct from the current MLSMR. The compound collection also includes 267 distinct compounds nominated by MLPCN Centers from projects for which the Centers would like to identify new chemical series with similar activities. The experiment consists of 375 microtiter plates. Each plate has 384 wells. Each field was imaged in five channels (detection wavelengths), and each channel is stored as a separate, grayscale 16-bit TIFF image file.

The experiment consists of 375 microtiter plates. Each plate has 384 wells. Each field was imaged in five channels (detection wavelengths), and each channel is stored as a separate, grayscale 16-bit TIFF image file.
DOI: 10.6075/j0251gqc
title: CIL:49153, Homo sapiens. In Cell Image Library

description: Plate 24663 - Phenotypic profiling attempts to summarize multiparametric, feature-based analysis of cellular phenotypes of each sample so that similarities between profiles reflect similarities between samples. This image set provides a basis for testing image-based profiling methods wrt. to their ability to distinguish the effects of small molecules. The images are of U2OS cells treated with each of 1600 known bioactive compounds and labeled with six labels that characterize seven organelles (the cell-painting assay). This experiment consists of 375 plates in 384-well format, for a data set comprised of 988,994 fields of view. Each field was imaged in five channels (detection wavelengths), and each channel is stored as a separate, grayscale image file, so there are approximately 5 million image files in 16-bit TIFF format.
description: Gustafsdottir et al. (doi:10.1371/journal.pone.0080999) have developed a multiplex cytological profiling assay that "paints the cell" with as many fluorescent markers as possible without compromising our ability to extract rich, quantitative profiles in high throughput. The assay detects seven major cellular components. In a pilot screen of bioactive compounds, the assay detected a range of cellular phenotypes and it clustered compounds with similar annotated protein targets or chemical structure based on cytological profiles. The results demonstrate that the assay captures subtle patterns in the combination of morphological labels, thereby detecting the effects of chemical compounds even though their targets are not stained directly. This image-based assay provides an unbiased approach to characterize compound- and disease-associated cell states to support future probe discovery. Using the cell-painting assay, the Broad Institute has assembled a reference dataset of profiles for U2OS osteosarcoma cells treated with ~30,000 compounds. The compound collection includes DOS-derived compounds (20,000), as well as chemically diverse MLI compounds with biologically diverse performance identified through analysis of PubChem (10,000), and known bioactive compounds to serve as landmarks (2,500). The DOS compounds consist of structurally diverse and stereochemically rich compounds with structures distinct from the current MLSMR. The compound collection also includes 267 distinct compounds nominated by MLPCN Centers from projects for which the Centers would like to identify new chemical series with similar activities. The experiment consists of 375 microtiter plates. Each plate has 384 wells. Each field was imaged in five channels (detection wavelengths), and each channel is stored as a separate, grayscale 16-bit TIFF image file.

The experiment consists of 375 microtiter plates. Each plate has 384 wells. Each field was imaged in five channels (detection wavelengths), and each channel is stored as a separate, grayscale 16-bit TIFF image file.
DOI: 10.6075/j0j964xj
title: CIL:49151, Homo sapiens. In Cell Image Library

description: Gustafsdottir et al. (doi:10.1371/journal.pone.0080999) have developed a multiplex cytological profiling assay that "paints the cell" with as many fluorescent markers as possible without compromising our ability to extract rich, quantitative profiles in high throughput. The assay detects seven major cellular components. In a pilot screen of bioactive compounds, the assay detected a range of cellular phenotypes and it clustered compounds with similar annotated protein targets or chemical structure based on cytological profiles. The results demonstrate that the assay captures subtle patterns in the combination of morphological labels, thereby detecting the effects of chemical compounds even though their targets are not stained directly. This image-based assay provides an unbiased approach to characterize compound- and disease-associated cell states to support future probe discovery. Using the cell-painting assay, the Broad Institute has assembled a reference dataset of profiles for U2OS osteosarcoma cells treated with ~30,000 compounds. The compound collection includes DOS-derived compounds (20,000), as well as chemically diverse MLI compounds with biologically diverse performance identified through analysis of PubChem (10,000), and known bioactive compounds to serve as landmarks (2,500). The DOS compounds consist of structurally diverse and stereochemically rich compounds with structures distinct from the current MLSMR. The compound collection also includes 267 distinct compounds nominated by MLPCN Centers from projects for which the Centers would like to identify new chemical series with similar activities. The experiment consists of 375 microtiter plates. Each plate has 384 wells. Each field was imaged in five channels (detection wavelengths), and each channel is stored as a separate, grayscale 16-bit TIFF image file.

The experiment consists of 375 microtiter plates. Each plate has 384 wells. Each field was imaged in five channels (detection wavelengths), and each channel is stored as a separate, grayscale 16-bit TIFF image file.
description: Plate 24667 - Phenotypic profiling attempts to summarize multiparametric, feature-based analysis of cellular phenotypes of each sample so that similarities between profiles reflect similarities between samples. This image set provides a basis for testing image-based profiling methods wrt. to their ability to distinguish the effects of small molecules. The images are of U2OS cells treated with each of 1600 known bioactive compounds and labeled with six labels that characterize seven organelles (the cell-painting assay). This experiment consists of 375 plates in 384-well format, for a data set comprised of 988,994 fields of view. Each field was imaged in five channels (detection wavelengths), and each channel is stored as a separate, grayscale image file, so there are approximately 5 million image files in 16-bit TIFF format.
DOI: 10.6075/j0pz58pg
title: CIL:36979, Xenopus laevis, CNS neuron (sensu Vertebrata). In Cell Image Library

description: Preparation: living tissue
Relation to intact cell: whole mounted tissue
Item type: recorded image
Imaging mode: multi-photon microscopy
Parameter imaged: fluorescence emission
Source of contrast: distribution of a specific protein
Visualization methods: EYFP
Processing history: unprocessed raw data
Data qualification: Raw;spatialmeasurements;intensitiesquantitation
description: This is IMAGE #6 (50 minutes) of a time lapse series contained with in this image group. It shows neurons from the optic tectum of an albino Xenopus laevis tadpole CNS, stage 47.
 
 The images were acquired with 10 minute intervals over one hour, and show morphological plasticity of the dendritic arbor with branch additions and retractions.
 
 These cells were transfected with in vivo electroporation of plasmid DNA encoding eYFP ~24 hours before the first image was acquired. The intact, living tadpole was anesthetized, positioned under a glass coverslip and this image was taken directly through its transparent skin using a custom built two-photon microscope.
description: Specifications of the custom built two-photon microscope, including the laser sources, signal amplification, PMT specifications, and YFP filter sets are described in: 
Ruthazer ES, Li J, Cline HT. 2006. Stabilization of axon branch dynamics by synaptic maturation. J Neurosci 26(13):3594-3603. 

The methods of cell transfection with electroporation can be found here: 
Bestman JE, Ewald RC, Chiu S-L, Cline HT. 2006. In vivo single-cell electroporation for transfer of DNA and macromolecules. Nat Protocols 1(3):1267-1272. 

Further explanation can be found here:
Bestman JE, Cline HT. 2008. The RNA binding protein CPEB regulates dendrite morphogenesis and neuronal circuit assembly in vivo. Proc Natl Acad Sci U S A 105(51):20494-20499.

Bestman JE, Cline HT. 2009. The Relationship between Dendritic Branch Dynamics and CPEB-Labeled RNP Granules Captured in Vivo. Front Neural Circuits 3:10.